Mock Version: 6.0
Mock Version: 6.0
Mock Version: 6.0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target x86_64 --nodeps /builddir/build/SPECS/R.spec'], chrootPath='/var/lib/mock/epel9-next-build-57187072-6549585/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7fe42d3f8f50>timeout=201600uid=1000gid=425user='mockbuild'unshare_net=TrueprintOutput=Falsenspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.xwbiezcu:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'])
Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.xwbiezcu:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']
Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', 'a1a8cd8a6ace468e9c79115e454f11c4', '-D', '/var/lib/mock/epel9-next-build-57187072-6549585/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.xwbiezcu:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target x86_64 --nodeps /builddir/build/SPECS/R.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1730419200
Wrote: /builddir/build/SRPMS/R-4.4.2-1.el9.next.src.rpm
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target x86_64 --nodeps /builddir/build/SPECS/R.spec'], chrootPath='/var/lib/mock/epel9-next-build-57187072-6549585/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7fe42d3f8f50>timeout=201600uid=1000gid=425user='mockbuild'unshare_net=TrueprintOutput=Falsenspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.xwbiezcu:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'])
Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.xwbiezcu:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']
Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', 'c285ef77b45849bd91b1ccb1ccaf931d', '-D', '/var/lib/mock/epel9-next-build-57187072-6549585/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.xwbiezcu:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target x86_64 --nodeps /builddir/build/SPECS/R.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1730419200
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.ihqwem
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf R-4.4.2
+ /usr/bin/gzip -dc /builddir/build/SOURCES/R-4.4.2.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd R-4.4.2
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
Patch #0 (R-3.3.0-fix-java_path-in-javareconf.patch):
+ echo 'Patch #0 (R-3.3.0-fix-java_path-in-javareconf.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .fixpath --fuzz=0
patching file src/scripts/javareconf.in
Hunk #1 succeeded at 79 (offset 1 line).
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.fx3Dt9
+ umask 022
+ cd /builddir/build/BUILD
+ cd R-4.4.2
+ sed -i -e '/R_LIBS_SITE=/s/^/#/g' etc/Renviron.in
+ echo 'R_LIBS_SITE=${R_LIBS_SITE-'\''/usr/local/lib/R/site-library:/usr/local/lib/R/library:/usr/lib64/R/library:/usr/share/R/library'\''}'
+ export R_RD4PDF=times,hyper
+ R_RD4PDF=times,hyper
+ sed -i 's|inconsolata,||g' etc/Renviron.in
+ export R_PDFVIEWER=/usr/bin/xdg-open
+ R_PDFVIEWER=/usr/bin/xdg-open
+ export R_BROWSER=/usr/bin/xdg-open
+ R_BROWSER=/usr/bin/xdg-open
+ export JAVA_HOME=/usr/lib/jvm/jre
+ JAVA_HOME=/usr/lib/jvm/jre
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules'
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules'
+ export FCFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']'
++ find . -type f -name configure -print
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure
+ diff -u ./configure.backup ./configure
--- ./configure.backup	2024-10-31 08:01:28.000000000 +0000
+++ ./configure	2025-02-11 13:24:53.267503731 +0000
@@ -12172,7 +12172,7 @@
 # Transform an extracted symbol line into a proper C declaration.
 # Some systems (esp. on ia64) link data and code symbols differently,
 # so use this general approach.
-lt_cv_sys_global_symbol_to_cdecl="sed -n"\
+lt_cv_sys_global_symbol_to_cdecl="sed -n -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^$symcode* .* \(.*\)$/extern char \1;/p'"
 $lt_cdecl_hook\
 " -e 's/^T .* \(.*\)$/extern int \1();/p'"\
 " -e 's/^$symcode$symcode* .* \(.*\)$/extern char \1;/p'"
@@ -61210,7 +61210,7 @@
 compiler='`$ECHO "$compiler" | $SED "$delay_single_quote_subst"`'
 GCC='`$ECHO "$GCC" | $SED "$delay_single_quote_subst"`'
 lt_cv_sys_global_symbol_pipe='`$ECHO "$lt_cv_sys_global_symbol_pipe" | $SED "$delay_single_quote_subst"`'
-lt_cv_sys_global_symbol_to_cdecl='`$ECHO "$lt_cv_sys_global_symbol_to_cdecl" | $SED "$delay_single_quote_subst"`'
+lt_cv_sys_global_symbol_to_cdecl="sed -n -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^$symcode* .* \(.*\)$/extern char \1;/p'"
 lt_cv_sys_global_symbol_to_import='`$ECHO "$lt_cv_sys_global_symbol_to_import" | $SED "$delay_single_quote_subst"`'
 lt_cv_sys_global_symbol_to_c_name_address='`$ECHO "$lt_cv_sys_global_symbol_to_c_name_address" | $SED "$delay_single_quote_subst"`'
 lt_cv_sys_global_symbol_to_c_name_address_lib_prefix='`$ECHO "$lt_cv_sys_global_symbol_to_c_name_address_lib_prefix" | $SED "$delay_single_quote_subst"`'
+ '[' 1 = 1 ']'
+++ dirname ./configure
++ find . -name config.guess -o -name config.sub
+ for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./tools/config.guess
+ '[' -f /usr/lib/rpm/redhat/config.guess ']'
+ /usr/bin/rm -f ./tools/config.guess
++ basename ./tools/config.guess
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./tools/config.guess
'/usr/lib/rpm/redhat/config.guess' -> './tools/config.guess'
+ for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./tools/config.sub
+ '[' -f /usr/lib/rpm/redhat/config.sub ']'
+ /usr/bin/rm -f ./tools/config.sub
++ basename ./tools/config.sub
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./tools/config.sub
'/usr/lib/rpm/redhat/config.sub' -> './tools/config.sub'
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']'
++ find . -name ltmain.sh
+ for i in $(find . -name ltmain.sh)
+ /usr/bin/sed -i.backup -e 's~compiler_flags=$~compiler_flags="-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld"~' ./tools/ltmain.sh
+ ./configure --build=x86_64-redhat-linux-gnu --host=x86_64-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info rdocdir=/usr/share/doc/R rincludedir=/usr/include/R rsharedir=/usr/share/R --with-system-tre --with-blas=flexiblas --with-lapack --with-tcl-config=/usr/lib64/tclConfig.sh --with-tk-config=/usr/lib64/tkConfig.sh --enable-R-shlib --enable-prebuilt-html --enable-R-profiling --enable-memory-profiling
+ tee CONFIGURE.log
configure: WARNING: unrecognized options: --disable-dependency-tracking
checking build system type... x86_64-redhat-linux-gnu
checking host system type... x86_64-redhat-linux-gnu
loading site script './config.site'
loading build-specific script './config.site'
checking for pwd... /usr/bin/pwd
checking whether builddir is srcdir... yes
checking whether ln -s works... yes
checking for ar... ar
checking for a BSD-compatible install... /usr/bin/install -c
checking for sed... /usr/bin/sed
checking for which... /usr/bin/which
checking for less... /usr/bin/less
checking for gtar... /usr/bin/gtar
checking for tex... /usr/bin/tex
checking for pdftex... /usr/bin/pdftex
checking for pdflatex... /usr/bin/pdflatex
checking for makeindex... /usr/bin/makeindex
checking for texi2any... /usr/bin/texi2any
checking whether texi2any version is at least 5.1... yes
checking for ginstall-info... no
checking for install-info... /usr/sbin/install-info
checking for texi2dvi... /usr/bin/texi2dvi
checking for kpsewhich... /usr/bin/kpsewhich
checking for latex inconsolata package... checking for unzip... /usr/bin/unzip
checking for zip... /usr/bin/zip
checking for gzip... /usr/bin/gzip
checking for bzip2... /usr/bin/bzip2
using default browser ... /usr/bin/xdg-open
checking for /usr/bin/xdg-open... /usr/bin/xdg-open
checking for working aclocal... found
checking for working autoconf... found
checking for working autoheader... found
checking for bison... no
checking for byacc... no
checking for yacc... no
checking for notangle... false
checking for realpath... /usr/bin/realpath
checking for pkg-config... /usr/bin/pkg-config
checking for x86_64-redhat-linux-gnu-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for wchar.h... yes
checking for minix/config.h... no
checking for sys/time.h... yes
checking for sys/param.h... yes
checking whether it is safe to define __EXTENSIONS__... yes
checking whether _XOPEN_SOURCE should be defined... no
checking how to run the C preprocessor... gcc -E
looking for a modern Fortran compiler
checking for x86_64-redhat-linux-gnu-gfortran... no
checking for x86_64-redhat-linux-gnu-g95... no
checking for x86_64-redhat-linux-gnu-xlf95... no
checking for x86_64-redhat-linux-gnu-f95... no
checking for x86_64-redhat-linux-gnu-fort... no
checking for x86_64-redhat-linux-gnu-ifort... no
checking for x86_64-redhat-linux-gnu-ifc... no
checking for x86_64-redhat-linux-gnu-efc... no
checking for x86_64-redhat-linux-gnu-pgfortran... no
checking for x86_64-redhat-linux-gnu-pgf95... no
checking for x86_64-redhat-linux-gnu-lf95... no
checking for x86_64-redhat-linux-gnu-ftn... no
checking for x86_64-redhat-linux-gnu-nagfor... no
checking for x86_64-redhat-linux-gnu-xlf90... no
checking for x86_64-redhat-linux-gnu-f90... no
checking for x86_64-redhat-linux-gnu-pgf90... no
checking for x86_64-redhat-linux-gnu-pghpf... no
checking for x86_64-redhat-linux-gnu-epcf90... no
checking for x86_64-redhat-linux-gnu-g77... no
checking for x86_64-redhat-linux-gnu-xlf... no
checking for x86_64-redhat-linux-gnu-f77... no
checking for x86_64-redhat-linux-gnu-frt... no
checking for x86_64-redhat-linux-gnu-pgf77... no
checking for x86_64-redhat-linux-gnu-cf77... no
checking for x86_64-redhat-linux-gnu-fort77... no
checking for x86_64-redhat-linux-gnu-fl32... no
checking for x86_64-redhat-linux-gnu-af77... no
checking for gfortran... gfortran
checking whether the compiler supports GNU Fortran... yes
checking whether gfortran accepts -g... yes
checking whether the compiler supports GNU C++... yes
checking whether g++ accepts -g... yes
checking for g++ option to enable C++11 features... none needed
checking whether g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection can compile C++ code... yes
checking how to run the C++ preprocessor... g++ -E
checking whether __attribute__((visibility())) is supported... yes
checking whether gcc accepts -fvisibility... yes
checking whether g++ accepts -fvisibility... yes
checking whether gfortran accepts -fvisibility... yes
checking for x86_64-redhat-linux-gnu-gcc... no
checking for x86_64-redhat-linux-gnu-objcc... no
checking for x86_64-redhat-linux-gnu-objc... no
checking for x86_64-redhat-linux-gnu-cc... no
checking for x86_64-redhat-linux-gnu-CC... no
checking for x86_64-redhat-linux-gnu-clang... no
checking for gcc... gcc
checking whether the compiler supports GNU Objective C... no
checking whether gcc accepts -g... no
checking whether gcc -std=gnu17 is a C17 compiler... yes
checking whether gcc -std=gnu23 is a C23 compiler... no
checking whether gcc -std=gnu2x is a C23 compiler... yes
checking whether gcc -std=gnu90 is a C90 compiler... yes
checking whether gcc -std=gnu99 is a C99 compiler... yes
checking how to print strings... printf
checking for a sed that does not truncate output... (cached) /usr/bin/sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking the maximum length of command line arguments... 1572864
checking how to convert x86_64-redhat-linux-gnu file names to x86_64-redhat-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-redhat-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for x86_64-redhat-linux-gnu-objdump... no
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
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checking how to associate runtime and link libraries... printf %s\n
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checking for ranlib... ranlib
checking for gawk... gawk
checking command to parse /usr/bin/nm -B output from gcc object... ./configure: line 12178:  -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/extern char \1;/p': No such file or directory
ok
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checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
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checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
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checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... no
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checking if gcc supports -c -o file.o... (cached) yes
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checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... no
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... no
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... no
checking for gfortran option to produce PIC... -fPIC
checking if gfortran PIC flag -fPIC works... yes
checking if gfortran static flag -static works... no
checking if gfortran supports -c -o file.o... yes
checking if gfortran supports -c -o file.o... (cached) yes
checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for cos in -lm... yes
checking for sin in -lm... yes
checking for dlopen in -ldl... yes
checking for readline/history.h... yes
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checking for rl_callback_read_char in -lreadline... yes
checking for history_truncate_file... yes
checking for tilde_expand_word... yes
checking whether rl_completion_matches exists and is declared... yes
checking whether rl_resize_terminal exists and is declared... yes
checking whether rl_sort_completion_matches exists and is declared... yes
checking for dirent.h that defines DIR... yes
checking for library containing opendir... none required
checking for sys/wait.h that is POSIX.1 compatible... yes
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checking for grp.h... yes
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checking for strings.h... (cached) yes
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checking for sys/time.h... (cached) yes
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checking for errno.h... yes
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checking for stdbool.h... yes
checking for stdint.h... (cached) yes
checking for string.h... (cached) yes
checking for gcc options needed to detect all undeclared functions... none needed
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checking whether sigsetjmp is declared... yes
checking whether siglongjmp is declared... yes
checking for egrep -e... (cached) /usr/bin/grep -E
checking for GNU C library with version >= 2... yes
checking for uint64_t... yes
checking for int64_t... yes
checking for int_fast64_t... yes
checking for pid_t... yes
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checking whether SIZE_MAX is declared... yes
checking for blkcnt_t... yes
checking for type of socket length... socklen_t *
checking for stack_t... yes
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checking for uintptr_t... yes
checking whether byte ordering is bigendian... no
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking size of int... 4
checking size of long... 8
checking size of long long... 8
checking size of double... 8
checking size of size_t... 8
checking for C stack direction... down
checking size of long double... 16
checking whether we can compute C Make dependencies... yes, using $(CC) -MM
checking whether gcc supports -c -o FILE.lo... yes
checking for gcc option to support OpenMP... -fopenmp
checking how to get verbose linking output from gfortran... -v
checking for Fortran libraries of gfortran...  -L/usr/lib/gcc/x86_64-redhat-linux/11 -L/usr/lib/gcc/x86_64-redhat-linux/11/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/11/../../.. -lgfortran -lm -lquadmath
checking how to get verbose linking output from gcc... -v
checking for C libraries of gcc...  -L/usr/lib/gcc/x86_64-redhat-linux/11 -L/usr/lib/gcc/x86_64-redhat-linux/11/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/11/../../.. -lgcc_s
checking for dummy main to link with Fortran libraries... none
checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore
checking whether gfortran appends underscores to external names... yes
checking whether gfortran appends extra underscores to external names... no
checking whether mixed C/Fortran code can be run... yes
checking whether gfortran and gcc agree on int and double... yes
checking whether gfortran and gcc agree on double complex... yes
checking for gfortran option to support OpenMP... -fopenmp
checking whether g++ accepts -M for generating dependencies... yes
checking whether we can compute ObjC Make dependencies... no
checking for type of 'hidden' Fortran character lengths... size_t
checking for xmkmf... no
checking whether g++  supports C++11 features with -std=gnu++11... yes
checking whether g++  supports C++14 features with -std=gnu++14... yes
checking whether g++  supports C++17 features with -std=gnu++17... yes
checking whether g++  supports C++20 features with -std=gnu++20... yes
checking whether g++  supports C++23 features with -std=gnu++23... yes
checking whether g++ -std=gnu++17 can compile ObjC++... no
checking whether  can compile ObjC++... no
checking for Objective C++ compiler... no working ObjC++ compiler found
checking for g++ -std=gnu++17 option to support OpenMP... -fopenmp
checking for option providing pthread_kill... none required
checking whether POSIX threads are supported... yes
checking for off_t... yes
checking for working alloca.h... yes
checking for alloca... yes
checking whether alloca is declared... yes
checking whether expm1 exists and is declared... yes
checking whether hypot exists and is declared... yes
checking whether log1p exists and is declared... yes
checking whether log1pl exists and is declared... yes
checking whether log2 exists and is declared... yes
checking whether log10 exists and is declared... yes
checking whether nearbyint exists and is declared... yes
checking whether nearbyintl exists and is declared... yes
checking whether powl exists and is declared... yes
checking whether rintl exists and is declared... yes
checking whether va_copy exists and is declared... yes
checking for isblank... yes
checking for sunmath.h... no
checking for cospi in -lsunmath... no
checking for atanpi... no
checking for atan2pi... no
checking for cospi... no
checking for exp10... yes
checking for pown... no
checking for sinpi... no
checking for tanpi... no
checking for __cospi... no
checking for __sinpi... no
checking for __tanpi... no
checking for fseeko... yes
checking for ftello... yes
checking whether fcntl exists and is declared... yes
checking whether getgrgid exists and is declared... yes
checking whether getpwnam exists and is declared... yes
checking whether getpwuid exists and is declared... yes
checking whether kill exists and is declared... yes
checking whether sigaction exists and is declared... yes
checking whether sigaltstack exists and is declared... yes
checking whether sigemptyset exists and is declared... yes
checking whether fdopen exists and is declared... yes
checking whether popen exists and is declared... yes
checking whether getline exists and is declared... yes
checking whether select exists and is declared... yes
checking whether setenv exists and is declared... yes
checking whether unsetenv exists and is declared... yes
checking whether getrlimit exists and is declared... yes
checking whether setrlimit exists and is declared... yes
checking whether getrusage exists and is declared... yes
checking whether getpriority exists and is declared... yes
checking whether chmod exists and is declared... yes
checking whether mkfifo exists and is declared... yes
checking whether stat exists and is declared... yes
checking whether umask exists and is declared... yes
checking whether gettimeofday exists and is declared... yes
checking whether utimes exists and is declared... yes
checking whether times exists and is declared... yes
checking whether gmtime_r exists and is declared... yes
checking whether localtime_r exists and is declared... yes
checking whether nl_langinfo exists and is declared... yes
checking whether access exists and is declared... yes
checking whether chdir exists and is declared... yes
checking whether execv exists and is declared... yes
checking whether ftruncate exists and is declared... yes
checking whether getcwd exists and is declared... yes
checking whether geteuid exists and is declared... yes
checking whether getuid exists and is declared... yes
checking whether link exists and is declared... yes
checking whether readlink exists and is declared... yes
checking whether symlink exists and is declared... yes
checking whether sysconf exists and is declared... yes
checking whether sched_setaffinity exists and is declared... yes
checking whether sched_getaffinity exists and is declared... yes
checking whether utime exists and is declared... yes
checking whether utimensat exists and is declared... yes
checking for clock_gettime in -lrt... yes
checking whether clock_gettime exists and is declared... yes
checking whether timespec_get exists and is declared... yes
checking for putenv... yes
checking whether putenv is declared... yes
checking for vasprintf... yes
checking whether vasprintf is declared... yes
checking for mempcpy... yes
checking for realpath... yes
checking whether realpath is declared... yes
checking whether glob exists and is declared... yes
checking for dladdr... yes
checking for dlsym... yes
checking whether dladdr is declared... yes
checking whether dlsym is declared... yes
checking whether RTLD_DEFAULT is declared... yes
checking whether RTLD_NEXT is declared... yes
checking for thread.h... no
checking whether thr_stksegment exists and is declared... no
checking for stpcpy... yes
checking for isnan... yes
checking whether isfinite is declared... yes
checking whether isnan is declared... yes
checking whether you have IEEE 754 floating-point arithmetic... yes
checking whether putenv("FOO") can unset an environment variable... yes
checking whether putenv("FOO=") can unset an environment variable... no
checking for nl_langinfo and CODESET... yes
checking for mkdtemp... yes
checking for strdup... yes
checking for strncasecmp... yes
checking whether mkdtemp is declared... yes
checking whether strdup is declared... yes
checking whether strncasecmp is declared... yes
checking for library containing connect... none required
checking for library containing gethostbyname... none required
checking for working calloc... yes
checking for working isfinite... yes
checking for working log1p... yes
checking whether ftell works correctly on files opened for append... yes
checking for working sigaction... yes
checking whether mktime, gmtime, localtime work correctly in 2020... yes
checking whether mktime sets errno... yes
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checking whether mktime works correctly before 1902... yes
checking whether mktime works correctly in 1969... yes
checking for complex.h... yes
checking for double complex... yes
checking whether C99 double complex is supported... yes
checking whether cabs exists and is declared... yes
checking whether carg exists and is declared... yes
checking whether cexp exists and is declared... yes
checking whether clog exists and is declared... yes
checking whether csqrt exists and is declared... yes
checking whether cpow exists and is declared... yes
checking whether ccos exists and is declared... yes
checking whether csin exists and is declared... yes
checking whether ctan exists and is declared... yes
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checking whether casin exists and is declared... yes
checking whether catan exists and is declared... yes
checking whether ccosh exists and is declared... yes
checking whether csinh exists and is declared... yes
checking whether ctanh exists and is declared... yes
checking for working ctanh... yes
checking whether 'struct tm' includes tm_zone... yes
checking whether 'struct tm' includes tm_gmtoff... yes
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checking whether double complex BLAS can be used... yes
checking whether the BLAS is complete... yes
checking for dpstrf_... yes
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checking for iconv... yes
checking whether iconv accepts "UTF-8", "latin1", "ASCII" and "UCS-*"... yes
checking whether iconv accepts "CP1252"... yes
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checking for iconv declaration... 
         extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
checking for wchar.h... (cached) yes
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checking for ICU... yes
checking for X... libraries , headers 
checking for gethostbyname... yes
checking for connect... yes
checking for remove... yes
checking for shmat... yes
checking for IceConnectionNumber in -lICE... yes
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checking for XtToolkitInitialize in -lXt... yes
using X11 ... yes
checking for KeySym... yes
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checking whether pkg-config knows about cairo and pango... yes
checking whether cairo including pango is >= 1.2 and works... yes
checking for /usr/lib64/tclConfig.sh... /usr/lib64/tclConfig.sh
checking for /usr/lib64/tkConfig.sh... /usr/lib64/tkConfig.sh
checking for tcl.h... yes
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checking whether compiling/linking Tcl/Tk code works... yes
checking for BSD networking... yes
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checking for XDR support... yes
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checking for zlib.h... yes
checking if zlib version >= 1.2.5... yes
checking whether zlib support suffices... yes
checking for BZ2_bzlibVersion in -lbz2... yes
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checking if bzip2 version >= 1.0.6... yes
checking whether bzip2 support suffices... yes
checking for lzma_version_number in -llzma... yes
checking for lzma.h... yes
checking if lzma version >= 5.0.3... yes
checking for libdeflate.h... yes
checking for libdeflate_alloc_compressor in -ldeflate... yes
yes
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checking for pcre2_compile_8 in -lpcre2-8... yes
checking if PCRE2 has Unicode support... yes
checking whether PCRE support suffices... yes
checking for tre_regncompb in -ltre... yes
checking for tre/tre.h... yes
checking for curl-config... /usr/bin/curl-config
checking libcurl version ... 7.76.1
checking for curl/curl.h... yes
checking if libcurl is >= 7.28.0... yes
checking if libcurl supports https... yes
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checking if jpeglib version >= 6b... yes
checking for jpeg_destroy_compress in -ljpeg... yes
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checking if libpng version >= 1.2.7... yes
checking for png_create_write_struct in -lpng... yes
checking if pkg-config knows about libtiff... yes
checking for tiffio.h... yes
checking for TIFFOpen in -ltiff... yes
checking whether leap seconds are treated according to POSIX... yes
checking for inline... inline
checking for struct stat.st_atim.tv_nsec... yes
checking whether struct stat.st_atim is of type struct timespec... yes
checking for setitimer... yes
checking for gcc option to enable large file support... none needed
checking for declarations of fseeko and ftello... yes
checking whether KERN_USRSTACK sysctl is supported... no
checking for visible __lib_stack_end... yes
checking for lpr... no
checking for lp... no
checking for paperconf... /usr/bin/paperconf
checking for Fortran flag to compile .f90 files... none
checking for Fortran flag to compile .f95 files... none
checking for gfortran option to support OpenMP... (cached) -fopenmp
checking for recommended packages... yes
checking whether NLS is requested... yes
Configuring src/extra/intl directory
checking for a race-free mkdir -p... /usr/bin/mkdir -p
checking whether we are using the GNU C Library 2 or newer... yes
checking for x86_64-redhat-linux-gnu-ranlib... ranlib
checking for simple visibility declarations... yes
checking for stdint.h... yes
checking for getpagesize... yes
checking for working mmap... yes
checking whether integer division by zero raises SIGFPE... no
checking for inttypes.h... yes
checking for unsigned long long int... yes
checking for inttypes.h... (cached) yes
checking whether the inttypes.h PRIxNN macros are broken... no
checking for ld used by gcc... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking for shared library run path origin... done
checking whether imported symbols can be declared weak... yes
checking for multithread API to use... none
checking for argz.h... yes
checking for inttypes.h... (cached) yes
checking for limits.h... (cached) yes
checking for unistd.h... (cached) yes
checking for sys/param.h... (cached) yes
checking for getcwd... yes
checking for getegid... yes
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checking for getuid... yes
checking for mempcpy... (cached) yes
checking for munmap... yes
checking for stpcpy... (cached) yes
checking for strcasecmp... yes
checking for strdup... (cached) yes
checking for strtoul... yes
checking for tsearch... yes
checking for argz_count... yes
checking for argz_stringify... yes
checking for argz_next... yes
checking for __fsetlocking... yes
checking whether feof_unlocked is declared... yes
checking whether fgets_unlocked is declared... yes
checking for iconv... (cached) yes
checking for iconv declaration... (cached) 
         extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
checking for NL_LOCALE_NAME macro... yes
checking for bison... no
checking for long long int... yes
checking for long double... yes
checking for wchar_t... yes
checking for wint_t... yes
checking for intmax_t... yes
checking whether printf() supports POSIX/XSI format strings... yes
checking whether we are using the GNU C Library 2.1 or newer... yes
checking for stdint.h... (cached) yes
checking for SIZE_MAX... yes
checking for stdint.h... (cached) yes
checking for CFPreferencesCopyAppValue... no
checking for CFLocaleCopyCurrent... no
checking for ptrdiff_t... yes
checking for stddef.h... yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for asprintf... yes
checking for fwprintf... yes
checking for putenv... (cached) yes
checking for setenv... yes
checking for setlocale... yes
checking for snprintf... yes
checking for wcslen... yes
checking whether _snprintf is declared... no
checking whether _snwprintf is declared... no
checking whether getc_unlocked is declared... yes
checking for nl_langinfo and CODESET... (cached) yes
checking for LC_MESSAGES... yes
checking for CFPreferencesCopyAppValue... (cached) no
checking for CFLocaleCopyCurrent... (cached) no
checking whether included gettext is requested... no
checking for GNU gettext in libc... yes
checking whether to use NLS... yes
checking where the gettext function comes from... libc
Finished configuring src/extra/intl directory
checking whether OpenMP SIMD reduction is supported... yes
using as R_SHELL for scripts ... /bin/sh
configure: creating ./config.status
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configure: WARNING: unrecognized options: --disable-dependency-tracking
R is now configured for x86_64-redhat-linux-gnu
  Source directory:            .
  Installation directory:      /usr
  C compiler:                  gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection
  Fortran fixed-form compiler: gfortran  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules
  Default C++ compiler:        g++ -std=gnu++17  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection
  C++11 compiler:              g++ -std=gnu++11  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection
  C++14 compiler:              g++ -std=gnu++14  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection
  C++17 compiler:              g++ -std=gnu++17  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection
  C++20 compiler:              g++ -std=gnu++20  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection
  C++23 compiler:              g++ -std=gnu++23  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection
  Fortran free-form compiler:  gfortran  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules
  Obj-C compiler:	        
  Interfaces supported:        X11, tcltk
  External libraries:          pcre2, readline, BLAS(FlexiBlas), LAPACK(in blas), tre, curl, libdeflate
  Additional capabilities:     PNG, JPEG, TIFF, NLS, cairo, ICU
  Options enabled:             shared R library, R profiling, memory profiling, static HTML, libdeflate for lazyload
  Capabilities skipped:        
  Options not enabled:         shared BLAS
  Recommended packages:        yes
+ cat CONFIGURE.log
+ grep -A30 'R is now' -
+ make V=1
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/m4'
make[1]: Nothing to be done for 'R'.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/m4'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/tools'
make[1]: Nothing to be done for 'R'.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tools'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc/html'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/doc/html'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc/manual'
make[2]: Nothing to be done for 'R'.
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/doc/manual'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/doc'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/etc'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/etc'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/share'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/share'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/scripts'
creating src/scripts/R.fe
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/scripts'
mkdir -p -- ../../bin
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/scripts'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/scripts'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/include'
mkdir -p -- ../../include
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/include/R_ext'
mkdir -p -- ../../../include/R_ext
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/include/R_ext'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/include'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/extra'
make[2]: Nothing to be done for 'R'.
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/extra'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/appl'
making integrate.d from integrate.c
making interv.d from interv.c
making maxcol.d from maxcol.c
making optim.d from optim.c
making pretty.d from pretty.c
making uncmin.d from uncmin.c
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/appl'
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c integrate.c -o integrate.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c interv.c -o interv.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c maxcol.c -o maxcol.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c optim.c -o optim.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pretty.c -o pretty.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c uncmin.c -o uncmin.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dchdc.f -o dchdc.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dpbfa.f -o dpbfa.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dpbsl.f -o dpbsl.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dpoco.f -o dpoco.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dpodi.f -o dpodi.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dpofa.f -o dpofa.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dposl.f -o dposl.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dqrdc.f -o dqrdc.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dqrdc2.f -o dqrdc2.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dqrls.f -o dqrls.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dqrsl.f -o dqrsl.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dqrutl.f -o dqrutl.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dsvdc.f -o dsvdc.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dtrco.f -o dtrco.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dtrsl.f -o dtrsl.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
ar -cr libappl.a integrate.o interv.o maxcol.o optim.o pretty.o uncmin.o dchdc.o dpbfa.o dpbsl.o dpoco.o dpodi.o dpofa.o dposl.o dqrdc.o dqrdc2.o dqrls.o dqrsl.o dqrutl.o dsvdc.o dtrco.o dtrsl.o  
ranlib libappl.a
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/appl'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/appl'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/nmath'
making mlutils.d from mlutils.c
making d1mach.d from d1mach.c
making i1mach.d from i1mach.c
making fmax2.d from fmax2.c
making fmin2.d from fmin2.c
making fprec.d from fprec.c
making fround.d from fround.c
making ftrunc.d from ftrunc.c
making sign.d from sign.c
making fsign.d from fsign.c
making imax2.d from imax2.c
making imin2.d from imin2.c
making chebyshev.d from chebyshev.c
making log1p.d from log1p.c
making lgammacor.d from lgammacor.c
making gammalims.d from gammalims.c
making stirlerr.d from stirlerr.c
making bd0.d from bd0.c
making gamma.d from gamma.c
making lgamma.d from lgamma.c
making gamma_cody.d from gamma_cody.c
making beta.d from beta.c
making lbeta.d from lbeta.c
making polygamma.d from polygamma.c
making cospi.d from cospi.c
making bessel_i.d from bessel_i.c
making bessel_j.d from bessel_j.c
making bessel_k.d from bessel_k.c
making bessel_y.d from bessel_y.c
making choose.d from choose.c
making snorm.d from snorm.c
making sexp.d from sexp.c
making dgamma.d from dgamma.c
making pgamma.d from pgamma.c
making qgamma.d from qgamma.c
making rgamma.d from rgamma.c
making dbeta.d from dbeta.c
making pbeta.d from pbeta.c
making qbeta.d from qbeta.c
making rbeta.d from rbeta.c
making dunif.d from dunif.c
making punif.d from punif.c
making qunif.d from qunif.c
making runif.d from runif.c
making dnorm.d from dnorm.c
making pnorm.d from pnorm.c
making qnorm.d from qnorm.c
making rnorm.d from rnorm.c
making dlnorm.d from dlnorm.c
making plnorm.d from plnorm.c
making qlnorm.d from qlnorm.c
making rlnorm.d from rlnorm.c
making df.d from df.c
making pf.d from pf.c
making qf.d from qf.c
making rf.d from rf.c
making dnf.d from dnf.c
making dt.d from dt.c
making pt.d from pt.c
making qt.d from qt.c
making rt.d from rt.c
making dnt.d from dnt.c
making dchisq.d from dchisq.c
making pchisq.d from pchisq.c
making qchisq.d from qchisq.c
making rchisq.d from rchisq.c
making rnchisq.d from rnchisq.c
making dbinom.d from dbinom.c
making pbinom.d from pbinom.c
making qbinom.d from qbinom.c
making rbinom.d from rbinom.c
making rmultinom.d from rmultinom.c
making dcauchy.d from dcauchy.c
making pcauchy.d from pcauchy.c
making qcauchy.d from qcauchy.c
making rcauchy.d from rcauchy.c
making dexp.d from dexp.c
making pexp.d from pexp.c
making qexp.d from qexp.c
making rexp.d from rexp.c
making dgeom.d from dgeom.c
making pgeom.d from pgeom.c
making qgeom.d from qgeom.c
making rgeom.d from rgeom.c
making dhyper.d from dhyper.c
making phyper.d from phyper.c
making qhyper.d from qhyper.c
making rhyper.d from rhyper.c
making dnbinom.d from dnbinom.c
making pnbinom.d from pnbinom.c
making qnbinom.d from qnbinom.c
making qnbinom_mu.d from qnbinom_mu.c
making rnbinom.d from rnbinom.c
making dpois.d from dpois.c
making ppois.d from ppois.c
making qpois.d from qpois.c
making rpois.d from rpois.c
making dweibull.d from dweibull.c
making pweibull.d from pweibull.c
making qweibull.d from qweibull.c
making rweibull.d from rweibull.c
making dlogis.d from dlogis.c
making plogis.d from plogis.c
making qlogis.d from qlogis.c
making rlogis.d from rlogis.c
making dnchisq.d from dnchisq.c
making pnchisq.d from pnchisq.c
making qnchisq.d from qnchisq.c
making dnbeta.d from dnbeta.c
making pnbeta.d from pnbeta.c
making qnbeta.d from qnbeta.c
making pnf.d from pnf.c
making pnt.d from pnt.c
making qnf.d from qnf.c
making qnt.d from qnt.c
making ptukey.d from ptukey.c
making qtukey.d from qtukey.c
making toms708.d from toms708.c
making wilcox.d from wilcox.c
making signrank.d from signrank.c
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/nmath'
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mlutils.c -o mlutils.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c d1mach.c -o d1mach.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c i1mach.c -o i1mach.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fmax2.c -o fmax2.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fmin2.c -o fmin2.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fprec.c -o fprec.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fround.c -o fround.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c ftrunc.c -o ftrunc.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sign.c -o sign.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fsign.c -o fsign.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c imax2.c -o imax2.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c imin2.c -o imin2.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c chebyshev.c -o chebyshev.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c log1p.c -o log1p.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c lgammacor.c -o lgammacor.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gammalims.c -o gammalims.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c stirlerr.c -o stirlerr.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bd0.c -o bd0.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gamma.c -o gamma.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c lgamma.c -o lgamma.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gamma_cody.c -o gamma_cody.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c beta.c -o beta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c lbeta.c -o lbeta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c polygamma.c -o polygamma.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cospi.c -o cospi.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bessel_i.c -o bessel_i.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bessel_j.c -o bessel_j.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bessel_k.c -o bessel_k.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bessel_y.c -o bessel_y.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c choose.c -o choose.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c snorm.c -o snorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sexp.c -o sexp.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dgamma.c -o dgamma.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pgamma.c -o pgamma.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qgamma.c -o qgamma.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rgamma.c -o rgamma.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dbeta.c -o dbeta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pbeta.c -o pbeta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qbeta.c -o qbeta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rbeta.c -o rbeta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dunif.c -o dunif.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c punif.c -o punif.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qunif.c -o qunif.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c runif.c -o runif.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dnorm.c -o dnorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pnorm.c -o pnorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qnorm.c -o qnorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rnorm.c -o rnorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dlnorm.c -o dlnorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c plnorm.c -o plnorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qlnorm.c -o qlnorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rlnorm.c -o rlnorm.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c df.c -o df.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pf.c -o pf.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qf.c -o qf.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rf.c -o rf.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dnf.c -o dnf.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dt.c -o dt.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pt.c -o pt.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qt.c -o qt.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rt.c -o rt.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dnt.c -o dnt.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dchisq.c -o dchisq.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pchisq.c -o pchisq.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qchisq.c -o qchisq.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rchisq.c -o rchisq.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rnchisq.c -o rnchisq.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dbinom.c -o dbinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pbinom.c -o pbinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qbinom.c -o qbinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rbinom.c -o rbinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rmultinom.c -o rmultinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dcauchy.c -o dcauchy.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pcauchy.c -o pcauchy.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qcauchy.c -o qcauchy.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rcauchy.c -o rcauchy.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dexp.c -o dexp.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pexp.c -o pexp.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qexp.c -o qexp.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rexp.c -o rexp.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dgeom.c -o dgeom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pgeom.c -o pgeom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qgeom.c -o qgeom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rgeom.c -o rgeom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dhyper.c -o dhyper.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c phyper.c -o phyper.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qhyper.c -o qhyper.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rhyper.c -o rhyper.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dnbinom.c -o dnbinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pnbinom.c -o pnbinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qnbinom.c -o qnbinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qnbinom_mu.c -o qnbinom_mu.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rnbinom.c -o rnbinom.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dpois.c -o dpois.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c ppois.c -o ppois.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qpois.c -o qpois.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rpois.c -o rpois.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dweibull.c -o dweibull.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pweibull.c -o pweibull.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qweibull.c -o qweibull.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rweibull.c -o rweibull.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dlogis.c -o dlogis.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c plogis.c -o plogis.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qlogis.c -o qlogis.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rlogis.c -o rlogis.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dnchisq.c -o dnchisq.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pnchisq.c -o pnchisq.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qnchisq.c -o qnchisq.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dnbeta.c -o dnbeta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pnbeta.c -o pnbeta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qnbeta.c -o qnbeta.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pnf.c -o pnf.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pnt.c -o pnt.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qnf.c -o qnf.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qnt.c -o qnt.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c ptukey.c -o ptukey.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qtukey.c -o qtukey.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c toms708.c -o toms708.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c wilcox.c -o wilcox.o
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c signrank.c -o signrank.o
ar -cr libnmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o
ranlib libnmath.a
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/nmath'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/nmath'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/unix'
config.status: creating src/unix/Makefile
making Rembedded.d from Rembedded.c
making dynload.d from dynload.c
making system.d from system.c
making sys-unix.d from sys-unix.c
making sys-std.d from sys-std.c
making X11.d from X11.c
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/unix'
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Rembedded.c -o Rembedded.o
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dynload.c -o dynload.o
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c system.c -o system.o
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -c sys-unix.c -o sys-unix.o
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sys-std.c -o sys-std.o
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c X11.c -o X11.o
ar -cr libunix.a Rembedded.o dynload.o system.o sys-unix.o sys-std.o X11.o
ranlib libunix.a
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/unix'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/unix'
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -DR_HOME='"/builddir/build/BUILD/R-4.4.2"' \
  -o Rscript ./Rscript.c
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/unix'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/unix'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/main'
config.status: creating src/main/Makefile
making CommandLineArgs.d from CommandLineArgs.c
making Rdynload.d from Rdynload.c
making Renviron.d from Renviron.c
making RNG.d from RNG.c
making agrep.d from agrep.c
making altclasses.d from altclasses.c
making altrep.d from altrep.c
making apply.d from apply.c
making arithmetic.d from arithmetic.c
making array.d from array.c
making attrib.d from attrib.c
making bind.d from bind.c
making builtin.d from builtin.c
making character.d from character.c
making clippath.d from clippath.c
making coerce.d from coerce.c
making colors.d from colors.c
making complex.d from complex.c
making connections.d from connections.c
making context.d from context.c
making cum.d from cum.c
making dcf.d from dcf.c
making datetime.d from datetime.c
making debug.d from debug.c
making deparse.d from deparse.c
making devices.d from devices.c
making dotcode.d from dotcode.c
making dounzip.d from dounzip.c
making dstruct.d from dstruct.c
making duplicate.d from duplicate.c
making edit.d from edit.c
making engine.d from engine.c
making envir.d from envir.c
making errors.d from errors.c
making eval.d from eval.c
making flexiblas.d from flexiblas.c
making format.d from format.c
making gevents.d from gevents.c
making gram.d from gram.c
making gram-ex.d from gram-ex.c
making graphics.d from graphics.c
making grep.d from grep.c
making identical.d from identical.c
making inlined.d from inlined.c
making inspect.d from inspect.c
making internet.d from internet.c
making iosupport.d from iosupport.c
making lapack.d from lapack.c
making list.d from list.c
making localecharset.d from localecharset.c
making logic.d from logic.c
making machine.d from machine.c
making main.d from main.c
making mapply.d from mapply.c
making mask.d from mask.c
making match.d from match.c
making memory.d from memory.c
making names.d from names.c
making objects.d from objects.c
making options.d from options.c
making paste.d from paste.c
making patterns.d from patterns.c
making platform.d from platform.c
making plot.d from plot.c
making plot3d.d from plot3d.c
making plotmath.d from plotmath.c
making print.d from print.c
making printarray.d from printarray.c
making printvector.d from printvector.c
making printutils.d from printutils.c
making qsort.d from qsort.c
making radixsort.d from radixsort.c
making random.d from random.c
making raw.d from raw.c
making registration.d from registration.c
making relop.d from relop.c
making rlocale.d from rlocale.c
making saveload.d from saveload.c
making scan.d from scan.c
making seq.d from seq.c
making serialize.d from serialize.c
making sort.d from sort.c
making source.d from source.c
making split.d from split.c
making sprintf.d from sprintf.c
making startup.d from startup.c
making subassign.d from subassign.c
making subscript.d from subscript.c
making subset.d from subset.c
making summary.d from summary.c
making sysutils.d from sysutils.c
making times.d from times.c
making unique.d from unique.c
making util.d from util.c
making version.d from version.c
making g_alab_her.d from g_alab_her.c
making g_cntrlify.d from g_cntrlify.c
making g_fontdb.d from g_fontdb.c
making g_her_glyph.d from g_her_glyph.c
making Rmain.d from Rmain.c
making alloca.d from alloca.c
making mkdtemp.d from mkdtemp.c
making strdup.d from strdup.c
making strncasecmp.d from strncasecmp.c
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/main'
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c CommandLineArgs.c -o CommandLineArgs.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Rdynload.c -o Rdynload.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Renviron.c -o Renviron.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c RNG.c -o RNG.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agrep.c -o agrep.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c altclasses.c -o altclasses.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c altrep.c -o altrep.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c apply.c -o apply.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c arithmetic.c -o arithmetic.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c array.c -o array.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c attrib.c -o attrib.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bind.c -o bind.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c builtin.c -o builtin.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c character.c -o character.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c clippath.c -o clippath.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coerce.c -o coerce.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c colors.c -o colors.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c complex.c -o complex.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c connections.c -o connections.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c context.c -o context.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cum.c -o cum.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dcf.c -o dcf.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c datetime.c -o datetime.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c debug.c -o debug.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c deparse.c -o deparse.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c devices.c -o devices.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dotcode.c -o dotcode.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dounzip.c -o dounzip.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dstruct.c -o dstruct.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c duplicate.c -o duplicate.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c edit.c -o edit.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c engine.c -o engine.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c envir.c -o envir.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c errors.c -o errors.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c eval.c -o eval.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c flexiblas.c -o flexiblas.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c format.c -o format.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gevents.c -o gevents.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gram.c -o gram.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gram-ex.c -o gram-ex.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c graphics.c -o graphics.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c grep.c -o grep.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c identical.c -o identical.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c inlined.c -o inlined.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c inspect.c -o inspect.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c internet.c -o internet.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c iosupport.c -o iosupport.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c lapack.c -o lapack.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c list.c -o list.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c localecharset.c -o localecharset.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c logic.c -o logic.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c machine.c -o machine.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c main.c -o main.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mapply.c -o mapply.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mask.c -o mask.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c match.c -o match.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c memory.c -o memory.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c names.c -o names.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c objects.c -o objects.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c options.c -o options.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c paste.c -o paste.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c patterns.c -o patterns.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c platform.c -o platform.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c plot.c -o plot.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c plot3d.c -o plot3d.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c plotmath.c -o plotmath.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c print.c -o print.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c printarray.c -o printarray.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c printvector.c -o printvector.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c printutils.c -o printutils.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qsort.c -o qsort.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c radixsort.c -o radixsort.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c random.c -o random.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c raw.c -o raw.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c registration.c -o registration.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c relop.c -o relop.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rlocale.c -o rlocale.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c saveload.c -o saveload.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c scan.c -o scan.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c seq.c -o seq.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c serialize.c -o serialize.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sort.c -o sort.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c source.c -o source.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c split.c -o split.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sprintf.c -o sprintf.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c startup.c -o startup.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c subassign.c -o subassign.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c subscript.c -o subscript.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c subset.c -o subset.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c summary.c -o summary.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sysutils.c -o sysutils.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c times.c -o times.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c unique.c -o unique.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c util.c -o util.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c version.c -o version.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c g_alab_her.c -o g_alab_her.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c g_cntrlify.c -o g_cntrlify.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c g_fontdb.c -o g_fontdb.o
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c g_her_glyph.c -o g_her_glyph.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c xxxpr.f -o xxxpr.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gcc -shared -fopenmp -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1   -o libR.so CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o altclasses.o altrep.o apply.o arithmetic.o array.o attrib.o bind.o builtin.o character.o clippath.o coerce.o colors.o complex.o connections.o context.o cum.o dcf.o datetime.o debug.o deparse.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o edit.o engine.o envir.o errors.o eval.o flexiblas.o format.o gevents.o gram.o gram-ex.o graphics.o grep.o identical.o inlined.o inspect.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o machine.o main.o mapply.o mask.o match.o memory.o names.o objects.o options.o paste.o patterns.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o radixsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o times.o unique.o util.o version.o g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o xxxpr.o   `ls ../unix/*.o ../appl/*.o ../nmath/*.o`     -lflexiblas -lgfortran -lm -lquadmath   -lreadline  -ltre -lpcre2-8 -ldeflate -llzma -lbz2 -lz -ltirpc -lrt -ldl -lm -licuuc -licui18n   
lto-wrapper: warning: using serial compilation of 51 LTRANS jobs
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/main'
mkdir -p -- /builddir/build/BUILD/R-4.4.2/bin/exec
mkdir -p -- /builddir/build/BUILD/R-4.4.2/lib
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/main'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/main'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/main'
gcc  -I/usr/include/tirpc -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Rmain.c -o Rmain.o
gcc -Wl,--export-dynamic -fopenmp  -L"../../lib" -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -o R.bin Rmain.o  -lR 
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/main'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/main'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/main'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/main'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/internet'
making Rhttpd.d from Rhttpd.c
making Rsock.d from Rsock.c
making internet.d from internet.c
making libcurl.d from libcurl.c
making sock.d from sock.c
making sockconn.d from sockconn.c
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/internet'
gcc -I. -I../../../src/include -I../../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o
gcc -I. -I../../../src/include -I../../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -fvisibility=hidden -c Rsock.c -o Rsock.o
gcc -I. -I../../../src/include -I../../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -fvisibility=hidden -c internet.c -o internet.o
gcc -I. -I../../../src/include -I../../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -fvisibility=hidden -c libcurl.c -o libcurl.o
gcc -I. -I../../../src/include -I../../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -fvisibility=hidden -c sock.c -o sock.o
gcc -I. -I../../../src/include -I../../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -fvisibility=hidden -c sockconn.c -o sockconn.o
gcc -shared -L"../../../lib" -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -o internet.so Rhttpd.o Rsock.o internet.o libcurl.o sock.o sockconn.o -lcurl -lR  
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/internet'
mkdir -p -- /builddir/build/BUILD/R-4.4.2/modules
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/internet'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/internet'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/internet'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/lapack'
making Lapack.d from Lapack.c
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/lapack'
gcc -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Lapack.c -o Lapack.o
gcc -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c  ../../main/flexiblas.c -o flexiblas.o
gcc -shared -L"../../../lib" -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -o lapack.so  Lapack.o  flexiblas.o -lR  -lflexiblas -lgfortran -lm -lquadmath
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/lapack'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/lapack'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/lapack'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/lapack'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/X11'
making devX11.d from devX11.c
making rotated.d from rotated.c
making rbitmap.d from rbitmap.c
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/X11'
gcc -I/usr/include/libpng16   -I. -I../../../src/include -I../../../src/include  -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c devX11.c -o devX11.o
gcc -I/usr/include/libpng16   -I. -I../../../src/include -I../../../src/include  -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rotated.c -o rotated.o
gcc -I/usr/include/libpng16   -I. -I../../../src/include -I../../../src/include  -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rbitmap.c -o rbitmap.o
gcc -shared -L"../../../lib" -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -o R_X11.so devX11.o rotated.o rbitmap.o -ltiff  -ljpeg  -lpng16 -lz  -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -lX11 -lXext  -lX11 -lXt -lXmu  -lR -lm 
lto-wrapper: warning: using serial compilation of 2 LTRANS jobs
gcc -I/usr/include/libpng16   -I. -I../../../src/include -I../../../src/include  -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dataentry.c -o dataentry.o
gcc -shared -L"../../../lib" -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -lX11 -lXext  -lX11 -lXt -lXmu  -lR -lm 
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/X11'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/modules/X11'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/X11'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules/X11'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/modules'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
mkdir -p -- ../../library
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/profile'
building system startup profile
mkdir -p -- ../../../library/base/R
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/profile'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/translations'
building package 'translations'
mkdir -p -- ../../../library/translations
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/translations'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/translations'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/translations'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/base'
building package 'base'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/base'
mkdir -p -- ../../../library/base/demo
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/base'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/base'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
building package 'tools'
mkdir -p -- ../../../library/tools
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
mkdir -p -- ../../../library/tools/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tools/src'
making text.d from text.c
making init.d from init.c
making Rmd5.d from Rmd5.c
making md5.d from md5.c
making signals.d from signals.c
making install.d from install.c
making getfmts.d from getfmts.c
making http.d from http.c
making gramLatex.d from gramLatex.c
making gramRd.d from gramRd.c
making pdscan.d from pdscan.c
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c text.c -o text.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Rmd5.c -o Rmd5.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c md5.c -o md5.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c signals.c -o signals.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c install.c -o install.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c getfmts.c -o getfmts.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c http.c -o http.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gramLatex.c -o gramLatex.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gramRd.c -o gramRd.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pdscan.c -o pdscan.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o tools.so text.o init.o Rmd5.o md5.o signals.o install.o getfmts.o http.o gramLatex.o gramRd.o pdscan.o -L../../../../lib -lR
lto-wrapper: warning: using serial compilation of 2 LTRANS jobs
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tools/src'
mkdir -p -- ../../../../library/tools/libs
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make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
installing 'sysdata.rda'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/compiler'
building package 'compiler'
mkdir -p -- ../../../library/compiler
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/compiler'
mkdir -p -- ../../../library/compiler/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/compiler'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/compiler'
byte-compiling package 'compiler'
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make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/compiler'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/base'
byte-compiling package 'base'
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make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
byte-compiling package 'tools'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tools'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
building package 'utils'
mkdir -p -- ../../../library/utils
mkdir -p -- ../../../library/utils/doc
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
mkdir -p -- ../../../library/utils/R
mkdir -p -- ../../../library/utils/Sweave
mkdir -p -- ../../../library/utils/misc
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/utils/src'
making init.d from init.c
making io.d from io.c
making size.d from size.c
making sock.d from sock.c
making stubs.d from stubs.c
making utils.d from utils.c
making hashtab.d from hashtab.c
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c io.c -o io.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c size.c -o size.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sock.c -o sock.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c stubs.c -o stubs.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c utils.c -o utils.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c hashtab.c -o hashtab.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o utils.so init.o io.o size.o sock.o stubs.o utils.o hashtab.o -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/utils/src'
mkdir -p -- ../../../../library/utils/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/utils/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/utils/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
installing 'sysdata.rda'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
byte-compiling package 'utils'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/utils'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices'
building package 'grDevices'
mkdir -p -- ../../../library/grDevices
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices'
mkdir -p -- ../../../library/grDevices/R
mkdir -p -- ../../../library/grDevices/afm
mkdir -p -- ../../../library/grDevices/enc
mkdir -p -- ../../../library/grDevices/fonts/Roboto
mkdir -p -- ../../../library/grDevices/fonts/Montserrat/static
mkdir -p -- ../../../library/grDevices/icc
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src'
making axis_scales.d from axis_scales.c
making chull.d from chull.c
making devices.d from devices.c
making init.d from init.c
making stubs.d from stubs.c
making colors.d from colors.c
making clippath.d from clippath.c
making patterns.d from patterns.c
making mask.d from mask.c
making group.d from group.c
making devCairo.d from devCairo.c
making devPicTeX.d from devPicTeX.c
making devPS.d from devPS.c
making devQuartz.d from devQuartz.c
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c axis_scales.c -o axis_scales.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c chull.c -o chull.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c devices.c -o devices.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c stubs.c -o stubs.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c colors.c -o colors.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c clippath.c -o clippath.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c patterns.c -o patterns.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mask.c -o mask.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c group.c -o group.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c devCairo.c -o devCairo.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c devPicTeX.c -o devPicTeX.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c devPS.c -o devPS.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c devQuartz.c -o devQuartz.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o grDevices.so axis_scales.o chull.o devices.o init.o stubs.o colors.o clippath.o patterns.o mask.o group.o devCairo.o devPicTeX.o devPS.o devQuartz.o -lz -L../../../../lib -lR
lto-wrapper: warning: using serial compilation of 3 LTRANS jobs
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src'
mkdir -p -- ../../../../library/grDevices/libs
make[7]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src/cairo'
making cairoBM.d from cairoBM.c
make[8]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src/cairo'
make[9]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src/cairo'
gcc -I. -I../../../../../src/include -I../../../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../../../src/modules/X11 -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cairoBM.c -o cairoBM.o
gcc -shared -L"../../../../../lib" -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -ltiff  -ljpeg  -lpng16 -lz  -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo  -L"../../../../../lib" -lR -lm 
make[9]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src/cairo'
make[8]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src/cairo'
make[7]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src/cairo'
make[6]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices'
byte-compiling package 'grDevices'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grDevices'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics'
building package 'graphics'
mkdir -p -- ../../../library/graphics
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics'
mkdir -p -- ../../../library/graphics/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics/src'
making init.d from init.c
making base.d from base.c
making graphics.d from graphics.c
making par.d from par.c
making plot.d from plot.c
making plot3d.d from plot3d.c
making stem.d from stem.c
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c base.c -o base.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c graphics.c -o graphics.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c par.c -o par.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c plot.c -o plot.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c plot3d.c -o plot3d.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c stem.c -o stem.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o graphics.so init.o base.o graphics.o par.o plot.o plot3d.o stem.o -L../../../../lib -lR
lto-wrapper: warning: using serial compilation of 6 LTRANS jobs
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics/src'
mkdir -p -- ../../../../library/graphics/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics'
byte-compiling package 'graphics'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/graphics'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats'
building package 'stats'
mkdir -p -- ../../../library/stats
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats'
mkdir -p -- ../../../library/stats/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats/src'
making init.d from init.c
making kmeans.d from kmeans.c
making ansari.d from ansari.c
making bandwidths.d from bandwidths.c
making chisqsim.d from chisqsim.c
making d2x2xk.d from d2x2xk.c
making fexact.d from fexact.c
making kendall.d from kendall.c
making ks.d from ks.c
making line.d from line.c
making smooth.d from smooth.c
making prho.d from prho.c
making swilk.d from swilk.c
making ksmooth.d from ksmooth.c
making loessc.d from loessc.c
making monoSpl.d from monoSpl.c
making isoreg.d from isoreg.c
making Srunmed.d from Srunmed.c
making dblcen.d from dblcen.c
making distance.d from distance.c
making hclust-utils.d from hclust-utils.c
making nls.d from nls.c
making rWishart.d from rWishart.c
making HoltWinters.d from HoltWinters.c
making PPsum.d from PPsum.c
making arima.d from arima.c
making burg.d from burg.c
making filter.d from filter.c
making mAR.d from mAR.c
making pacf.d from pacf.c
making starma.d from starma.c
making port.d from port.c
making family.d from family.c
making sbart.d from sbart.c
making approx.d from approx.c
making loglin.d from loglin.c
making lowess.d from lowess.c
making massdist.d from massdist.c
making splines.d from splines.c
making lm.d from lm.c
making complete_cases.d from complete_cases.c
making cov.d from cov.c
making deriv.d from deriv.c
making fft.d from fft.c
making fourier.d from fourier.c
making model.d from model.c
making optim.d from optim.c
making optimize.d from optimize.c
making integrate.d from integrate.c
making random.d from random.c
making distn.d from distn.c
making zeroin.d from zeroin.c
making rcont.d from rcont.c
making influence.d from influence.c
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c kmeans.c -o kmeans.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c ansari.c -o ansari.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bandwidths.c -o bandwidths.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c chisqsim.c -o chisqsim.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c d2x2xk.c -o d2x2xk.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fexact.c -o fexact.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c kendall.c -o kendall.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c ks.c -o ks.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c line.c -o line.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c smooth.c -o smooth.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c prho.c -o prho.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c swilk.c -o swilk.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c ksmooth.c -o ksmooth.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c loessc.c -o loessc.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c monoSpl.c -o monoSpl.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c isoreg.c -o isoreg.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Srunmed.c -o Srunmed.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dblcen.c -o dblcen.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c distance.c -o distance.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c hclust-utils.c -o hclust-utils.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c nls.c -o nls.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rWishart.c -o rWishart.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c HoltWinters.c -o HoltWinters.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c PPsum.c -o PPsum.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c arima.c -o arima.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c burg.c -o burg.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c filter.c -o filter.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mAR.c -o mAR.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pacf.c -o pacf.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c starma.c -o starma.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c port.c -o port.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c family.c -o family.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sbart.c -o sbart.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c approx.c -o approx.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c loglin.c -o loglin.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c lowess.c -o lowess.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c massdist.c -o massdist.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c splines.c -o splines.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c lm.c -o lm.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c complete_cases.c -o complete_cases.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cov.c -o cov.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c deriv.c -o deriv.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fft.c -o fft.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fourier.c -o fourier.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c model.c -o model.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c optim.c -o optim.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c optimize.c -o optimize.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c integrate.c -o integrate.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c random.c -o random.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c distn.c -o distn.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c zeroin.c -o zeroin.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rcont.c -o rcont.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fopenmp -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c influence.c -o influence.o
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c bsplvd.f -o bsplvd.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c bvalue.f -o bvalue.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c bvalus.f -o bvalus.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c loessf.f -o loessf.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c ppr.f -o ppr.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c qsbart.f -o qsbart.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c sgram.f -o sgram.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c sinerp.f -o sinerp.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c sslvrg.f -o sslvrg.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c stxwx.f -o stxwx.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c hclust.f -o hclust.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c kmns.f -o kmns.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c eureka.f -o eureka.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c stl.f -o stl.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -msse2 -mfpmath=sse  -c portsrc.f -o portsrc.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
portsrc.f: In function 'i7do_':
portsrc.f:6663:72: warning: 'ncomp' may be used uninitialized in this function [-Wmaybe-uninitialized]
 6663 |          NCOMP = NCOMP + 1
      |                                                                        ^
portsrc.f:6648:72: warning: 'jcol' may be used uninitialized in this function [-Wmaybe-uninitialized]
 6648 |          LIST(JCOL) = NUMORD
      |                                                                        ^
portsrc.f: In function 'dl7mst_':
portsrc.f:5521:51: warning: 'alphak' may be used uninitialized in this function [-Wmaybe-uninitialized]
 5521 |       IF (ALPHAK .LE. ZERO .OR. ALPHAK .LT. LK .OR. ALPHAK .GE. UK)
      |                                                   ^
portsrc.f:5658:18: warning: 'psifac' may be used uninitialized in this function [-Wmaybe-uninitialized]
 5658 |               IF (ALPHAK .GE. TWOPSI*PSIFAC) GO TO 310
      |                  ^
portsrc.f: In function 'dg7qts_':
portsrc.f:10329:55: warning: 'alphak' may be used uninitialized in this function [-Wmaybe-uninitialized]
10329 |       IF (-V(DST0) .GE. ALPHAK .OR. ALPHAK .LT. LK .OR. ALPHAK .GE. UK)
      |                                                       ^
portsrc.f:10412:72: warning: 'gtsta' may be used uninitialized in this function [-Wmaybe-uninitialized]
10412 |       V(PREDUC) = HALF * (DABS(ALPHAK)*DST*DST + GTSTA)
      |                                                                        ^
portsrc.f:10324:72: warning: 'phi' may be used uninitialized in this function [-Wmaybe-uninitialized]
10324 |       LK = DMAX1(LK, PHI*W(PHIPIN))
      |                                                                        ^
portsrc.f:10466:10: warning: 'kamin' may be used uninitialized in this function [-Wmaybe-uninitialized]
10466 |       IF (KA .GE. KAMIN) GO TO 340
      |          ^
portsrc.f: In function 'dd7dgb_':
portsrc.f:12243:72: warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized]
12243 |       V(NREDUC) = NRED
      |                                                                        ^
portsrc.f:12246:72: warning: 'dnwtst' may be used uninitialized in this function [-Wmaybe-uninitialized]
12246 |       V(DST0) = DNWTST
      |                                                                        ^
portsrc.f: In function 'dg7qsb_':
portsrc.f:2515:72: warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized]
 2515 |       V(NREDUC) = NRED
      |                                                                        ^
portsrc.f:2514:72: warning: 'ds0' may be used uninitialized in this function [-Wmaybe-uninitialized]
 2514 |  60   V(DST0) = DS0
      |                                                                        ^
portsrc.f: In function 'dl7msb_':
portsrc.f:8174:72: warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized]
 8174 |       V(NREDUC) = NRED
      |                                                                        ^
portsrc.f:8173:72: warning: 'ds0' may be used uninitialized in this function [-Wmaybe-uninitialized]
 8173 |  90   V(DST0) = DS0
      |                                                                        ^
portsrc.f: In function 'df7hes_':
portsrc.f:8652:72: warning: 'hes' may be used uninitialized in this function [-Wmaybe-uninitialized]
 8652 |  210  IV(FDH) = HES
      |                                                                        ^
portsrc.f: In function 'dparck_':
portsrc.f:3587:10: warning: 'miv2' may be used uninitialized in this function [-Wmaybe-uninitialized]
 3587 |       IF (LIV .LT. MIV2) GO TO 300
      |          ^
portsrc.f: In function 'drn2gb_':
portsrc.f:12079:72: warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized]
12079 |  270  CALL DITSUM(D, V(G1), IV, LIV, LV, P, V, X)
      |                                                                        ^
portsrc.f: In function 'drn2g_':
portsrc.f:458:72: warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized]
  458 |  300  CALL DITSUM(D, V(G1), IV, LIV, LV, P, V, X)
      |                                                                        ^
portsrc.f:366:72: warning: 'rmat1' may be used uninitialized in this function [-Wmaybe-uninitialized]
  366 |       CALL DL7VML(P, V(G1), V(RMAT1), V(QTR1))
      |                                                                        ^
portsrc.f:366:72: warning: 'qtr1' may be used uninitialized in this function [-Wmaybe-uninitialized]
gfortran -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c lminfl.f -o lminfl.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o stats.so init.o kmeans.o ansari.o bandwidths.o chisqsim.o d2x2xk.o fexact.o kendall.o ks.o line.o smooth.o prho.o swilk.o ksmooth.o loessc.o monoSpl.o isoreg.o Srunmed.o dblcen.o distance.o hclust-utils.o nls.o rWishart.o HoltWinters.o PPsum.o arima.o burg.o filter.o mAR.o pacf.o starma.o port.o family.o sbart.o approx.o loglin.o lowess.o massdist.o splines.o lm.o complete_cases.o cov.o deriv.o fft.o fourier.o model.o optim.o optimize.o integrate.o random.o distn.o zeroin.o rcont.o influence.o bsplvd.o bvalue.o bvalus.o loessf.o ppr.o qsbart.o sgram.o sinerp.o sslvrg.o stxwx.o hclust.o kmns.o eureka.o stl.o portsrc.o lminfl.o -fopenmp -lflexiblas -lgfortran -lm -lquadmath -L../../../../lib -lR
lto-wrapper: warning: using serial compilation of 9 LTRANS jobs
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats/src'
mkdir -p -- ../../../../library/stats/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats'
byte-compiling package 'stats'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/datasets'
building package 'datasets'
mkdir -p -- ../../../library/datasets
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/datasets'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/datasets'
mkdir -p -- ../../../library/datasets/data
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/datasets'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/methods'
building package 'methods'
mkdir -p -- ../../../library/methods
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/methods'
mkdir -p -- ../../../library/methods/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/methods'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/methods'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/methods/src'
making do_substitute_direct.d from do_substitute_direct.c
making init.d from init.c
making methods_list_dispatch.d from methods_list_dispatch.c
making slot.d from slot.c
making class_support.d from class_support.c
making tests.d from tests.c
making utils.d from utils.c
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c do_substitute_direct.c -o do_substitute_direct.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c methods_list_dispatch.c -o methods_list_dispatch.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c slot.c -o slot.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c class_support.c -o class_support.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c tests.c -o tests.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c utils.c -o utils.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o utils.o -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/methods/src'
mkdir -p -- ../../../../library/methods/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/methods/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/methods/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/methods'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/methods'
byte-compiling package 'methods'
initializing class and method definitions ... done
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/methods'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/methods'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grid'
building package 'grid'
mkdir -p -- ../../../library/grid
mkdir -p -- ../../../library/grid/doc
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grid'
mkdir -p -- ../../../library/grid/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grid'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grid'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grid/src'
making clippath.d from clippath.c
making gpar.d from gpar.c
making grid.d from grid.c
making just.d from just.c
making layout.d from layout.c
making mask.d from mask.c
making matrix.d from matrix.c
making path.d from path.c
making register.d from register.c
making state.d from state.c
making typeset.d from typeset.c
making unit.d from unit.c
making util.d from util.c
making viewport.d from viewport.c
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c clippath.c -o clippath.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gpar.c -o gpar.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c grid.c -o grid.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c just.c -o just.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c layout.c -o layout.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mask.c -o mask.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c matrix.c -o matrix.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c path.c -o path.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c register.c -o register.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c state.c -o state.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c typeset.c -o typeset.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c unit.c -o unit.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c util.c -o util.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c viewport.c -o viewport.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o grid.so clippath.o gpar.o grid.o just.o layout.o mask.o matrix.o path.o register.o state.o typeset.o unit.o util.o viewport.o -L../../../../lib -lR
lto-wrapper: warning: using serial compilation of 3 LTRANS jobs
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grid/src'
mkdir -p -- ../../../../library/grid/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grid/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grid/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grid'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/grid'
byte-compiling package 'grid'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grid'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/grid'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/splines'
building package 'splines'
mkdir -p -- ../../../library/splines
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/splines'
mkdir -p -- ../../../library/splines/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/splines'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/splines'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/splines/src'
making splines.d from splines.c
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c splines.c -o splines.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o splines.so splines.o -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/splines/src'
mkdir -p -- ../../../../library/splines/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/splines/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/splines/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/splines'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/splines'
byte-compiling package 'splines'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/splines'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/splines'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats4'
building package 'stats4'
mkdir -p -- ../../../library/stats4
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats4'
mkdir -p -- ../../../library/stats4/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats4'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/stats4'
byte-compiling package 'stats4'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats4'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/stats4'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk'
building package 'tcltk'
mkdir -p -- ../../../library/tcltk/R
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk'
mkdir -p -- ../../../library/tcltk/exec
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk/src'
making init.d from init.c
making tcltk.d from tcltk.c
making tcltk_unix.d from tcltk_unix.c
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include -I/usr/include   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include -I/usr/include   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c tcltk.c -o tcltk.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include -I/usr/include   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c tcltk_unix.c -o tcltk_unix.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib64 -ltcl8.6 -L/usr/lib64 -ltk8.6 -lX11 -lm -L../../../../lib -lR
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk/src'
mkdir -p -- ../../../../library/tcltk/libs
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk/src'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk'
byte-compiling package 'tcltk'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/tcltk'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel'
building package 'parallel'
mkdir -p -- ../../../library/parallel
mkdir -p -- ../../../library/parallel/doc
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel'
mkdir -p -- ../../../library/parallel/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel'
make[5]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel/src'
making init.d from init.c
making rngstream.d from rngstream.c
making fork.d from fork.c
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rngstream.c -o rngstream.o
gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fork.c -o fork.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel/src'
mkdir -p -- ../../../../library/parallel/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel'
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel'
byte-compiling package 'parallel'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/parallel'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/base'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/base'
installing parsed NAMESPACE files
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
make[1]: Nothing to be done for 'R'.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
you should 'make docs' now ...
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc'
creating doc/NEWS
creating doc/NEWS.pdf
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc/manual'
creating doc/manual/R-FAQ.html
creating doc/manual/version.texi
creating doc/manual/R-admin.html
creating doc/manual/R-data.html
creating doc/manual/R-exts.html
creating doc/manual/R-intro.html
creating doc/manual/R-ints.html
creating doc/manual/R-lang.html
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc/html'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/doc/html'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/doc/manual'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/doc'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
installing parsed Rd
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
  base
  stats
  utils
  methods
  graphics
  grDevices
  datasets
  grid
  tools
  tcltk
  splines
  stats4
  compiler
  parallel
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
building/updating package metadata ...
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
writing package indices
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
building all R object docs
  converting help for package 'base'
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REDIRECT:topic	 Previous alias or file overwritten by alias: ../../library/base/help/Version.html
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  converting help for package 'tools'
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    BATCH                                   html  
    COMPILE                                 html  
    DLL.version                             html  
    INSTALL                                 html  
    LINK                                    html  
    PkgUtils                                html  
    Question                                html  
    REMOVE                                  html  
    RHOME                                   html  
    RShowDoc                                html  
    RSiteSearch                             html  
    Rconsole                                html  
    Rprof                                   html  
    Rprofmem                                html  
    Rscript                                 html  
    Rtangle                                 html  
    RweaveLatex                             html  
    SHLIB                                   html  
    Sweave                                  html  
    SweaveSyntConv                          html  
    SweaveUtils                             html  
    URLencode                               html  
    View                                    html  
    adist                                   html  
    alarm                                   html  
    apropos                                 html  
    aregexec                                html  
    arrangeWindows                          html  
    askYesNo                                html  
    aspell-utils                            html  
    aspell                                  html  
    available.packages                      html  
    bibentry                                html  
    browseEnv                               html  
    browseURL                               html  
    browseVignettes                         html  
    bug.report                              html  
    capture.output                          html  
    changedFiles                            html  
    charClass                               html  
    choose.dir                              html  
    choose.files                            html  
    chooseBioCmirror                        html  
    chooseCRANmirror                        html  
    citEntry                                html  
    citation                                html  
    cite                                    html  
    clipboard                               html  
    close.socket                            html  
    combn                                   html  
    compareVersion                          html  
    contrib.url                             html  
    count.fields                            html  
    create.post                             html  
    data                                    html  
    dataentry                               html  
    debugcall                               html  
    debugger                                html  
    demo                                    html  
    download.file                           html  
    download.packages                       html  
    edit                                    html  
    edit.data.frame                         html  
    example                                 html  
    file.edit                               html  
    filetest                                html  
    findCRANmirror                          html  
    findLineNum                             html  
    fix                                     html  
    flush.console                           html  
    format                                  html  
    getAnywhere                             html  
    getFromNamespace                        html  
    getParseData                            html  
    getS3method                             html  
    getWindowsHandle                        html  
    getWindowsHandles                       html  
    glob2rx                                 html  
    globalVariables                         html  
    hasName                                 html  
    hashtab                                 html  
    head                                    html  
    help                                    html  
    help.request                            html  
    help.search                             html  
    help.start                              html  
    hsearch-utils                           html  
    install.packages                        html  
    installed.packages                      html  
    isS3method                              html  
    isS3stdGen                              html  
    localeToCharset                         html  
    ls_str                                  html  
    maintainer                              html  
    make.packages.html                      html  
    make.socket                             html  
    memory.size                             html  
    menu                                    html  
    methods                                 html  
    mirrorAdmin                             html  
    modifyList                              html  
    news                                    html  
    nsl                                     html  
    object.size                             html  
    package.skeleton                        html  
    packageDescription                      html  
    packageName                             html  
    packageStatus                           html  
    page                                    html  
    person                                  html  
    personList                              html  
    process.events                          html  
    prompt                                  html  
    promptData                              html  
    promptPackage                           html  
    rcompgen                                html  
    read.DIF                                html  
    read.fortran                            html  
    read.fwf                                html  
    read.socket                             html  
    read.table                              html  
    readRegistry                            html  
    recover                                 html  
    relist                                  html  
    remove.packages                         html  
    removeSource                            html  
    roman                                   html  
    rtags                                   html  
    savehistory                             html  
    select.list                             html  
    sessionInfo                             html  
    setRepositories                         html  
    setWindowTitle                          html  
    shortPathName                           html  
    sourceutils                             html  
    stack                                   html  
    str                                     html  
    strcapture                              html  
    summaryRprof                            html  
    tar                                     html  
    toLatex                                 html  
    txtProgressBar                          html  
    type.convert                            html  
    untar                                   html  
    unzip                                   html  
    update.packages                         html  
    upgrade                                 html  
    url.show                                html  
    utils-defunct                           html  
    utils-deprecated                        html  
    utils-internal                          html  
    utils-package                           html  
    vignette                                html  
    warnErrList                             html  
    winDialog                               html  
    winMenus                                html  
    winProgressBar                          html  
    winextras                               html  
    write.table                             html  
    zip                                     html  
  converting help for package 'grDevices'
    Devices                                 html  
    Hershey                                 html  
    Japanese                                html  
    Type1Font                               html  
    adjustcolor                             html  
    as.graphicsAnnot                        html  
    as.raster                               html  
    axisTicks                               html  
    boxplot.stats                           html  
    bringToTop                              html  
    cairo                                   html  
    cairoSymbolFont                         html  
    check.options                           html  
    chull                                   html  
    cm                                      html  
    col2rgb                                 html  
    colorRamp                               html  
    colors                                  html  
    contourLines                            html  
    convertColor                            html  
    densCols                                html  
    dev                                     html  
    dev.capabilities                        html  
    dev.capture                             html  
    dev.flush                               html  
    dev.interactive                         html  
    dev.size                                html  
    dev2                                    html  
    dev2bitmap                              html  
    devAskNewPage                           html  
    embedFonts                              html  
    extendrange                             html  
    getGraphicsEvent                        html  
    glyphInfo                               html  
    grDevices-internal                      html  
    grDevices-package                       html  
    grSoftVersion                           html  
    gray                                    html  
    gray.colors                             html  
    hcl                                     html  
    hsv                                     html  
    make.rgb                                html  
    msgWindow                               html  
    n2mfrow                                 html  
    nclass                                  html  
    palette                                 html  
    palettes                                html  
    pdf                                     html  
    pdf.options                             html  
    pictex                                  html  
    plotmath                                html  
    postscript                              html  
    postscriptFonts                         html  
    pretty.Date                             html  
    ps.options                              html  
    quartz                                  html  
    quartzFonts                             html  
    recordGraphics                          html  
    recordplot                              html  
    rgb                                     html  
    rgb2hsv                                 html  
    trans3d                                 html  
    windows                                 html  
    windows.options                         html  
    windowsFonts                            html  
    x11                                     html  
    x11Fonts                                html  
    xfig                                    html  
    xy.coords                               html  
    xyTable                                 html  
    xyz.coords                              html  
    png                                     html  
    savePlot                                html  
  converting help for package 'graphics'
    abline                                  html  
    arrows                                  html  
    assocplot                               html  
    axTicks                                 html  
    axis.POSIXct                            html  
    axis                                    html  
    barplot                                 html  
    box                                     html  
    boxplot                                 html  
    boxplot.matrix                          html  
    bxp                                     html  
    cdplot                                  html  
    clip                                    html  
    contour                                 html  
    convertXY                               html  
    coplot                                  html  
    curve                                   html  
    dotchart                                html  
    filled.contour                          html  
    fourfoldplot                            html  
    frame                                   html  
    graphics-defunct                        html  
    graphics-package                        html  
    grid                                    html  
    hist.POSIXt                             html  
    hist                                    html  
    identify                                html  
    image                                   html  
    layout                                  html  
    legend                                  html  
    lines                                   html  
    locator                                 html  
    matplot                                 html  
    mosaicplot                              html  
    mtext                                   html  
    pairs                                   html  
    panel.smooth                            html  
    par                                     html  
    persp                                   html  
    pie                                     html  
    plot.dataframe                          html  
    plot.default                            html  
    plot.design                             html  
    plot.factor                             html  
    plot.formula                            html  
    plot.raster                             html  
    plot.table                              html  
    plot.window                             html  
    plot.xy                                 html  
    plothistogram                           html  
    points                                  html  
    polygon                                 html  
    polypath                                html  
    rasterImage                             html  
    rect                                    html  
    rug                                     html  
    screen                                  html  
    segments                                html  
    smoothScatter                           html  
    spineplot                               html  
    stars                                   html  
    stem                                    html  
    stripchart                              html  
    strwidth                                html  
    sunflowerplot                           html  
    symbols                                 html  
    text                                    html  
    title                                   html  
    units                                   html  
    xspline                                 html  
    zAxis                                   html  
  converting help for package 'stats'
    AIC                                     html  
    ARMAacf                                 html  
    ARMAtoMA                                html  
    Beta                                    html  
    Binomial                                html  
    Cauchy                                  html  
    Chisquare                               html  
    Distributions                           html  
    Exponential                             html  
    Fdist                                   html  
    GammaDist                               html  
    Geometric                               html  
    HoltWinters                             html  
    Hypergeometric                          html  
    IQR                                     html  
    KalmanLike                              html  
    Logistic                                html  
    Lognormal                               html  
    Multinom                                html  
    NLSstAsymptotic                         html  
    NLSstClosestX                           html  
    NLSstLfAsymptote                        html  
    NLSstRtAsymptote                        html  
    NegBinomial                             html  
    Normal                                  html  
    Pair                                    html  
    Poisson                                 html  
    SSD                                     html  
    SSasymp                                 html  
    SSasympOff                              html  
    SSasympOrig                             html  
    SSbiexp                                 html  
    SSfol                                   html  
    SSfpl                                   html  
    SSgompertz                              html  
    SSlogis                                 html  
    SSmicmen                                html  
    SSweibull                               html  
    SignRank                                html  
    Smirnov                                 html  
    StructTS                                html  
    TDist                                   html  
    Tukey                                   html  
    TukeyHSD                                html  
    Uniform                                 html  
    Weibull                                 html  
    Wilcoxon                                html  
    acf                                     html  
    acf2AR                                  html  
    add1                                    html  
    addmargins                              html  
    aggregate                               html  
    alias                                   html  
    anova                                   html  
    anova.glm                               html  
    anova.lm                                html  
    anova.mlm                               html  
    ansari.test                             html  
    aov                                     html  
    approxfun                               html  
    ar                                      html  
    ar.ols                                  html  
    arima                                   html  
    arima.sim                               html  
    arima0                                  html  
    as.hclust                               html  
    asOneSidedFormula                       html  
    ave                                     html  
    bandwidth                               html  
    bartlett.test                           html  
    binom.test                              html  
    biplot                                  html  
    biplot.princomp                         html  
    birthday                                html  
    box.test                                html  
    cancor                                  html  
    case.names                              html  
    checkMFClasses                          html  
    chisq.test                              html  
    cmdscale                                html  
    coef                                    html  
    complete.cases                          html  
    confint                                 html  
    constrOptim                             html  
    contrast                                html  
    contrasts                               html  
    convolve                                html  
    cophenetic                              html  
    cor                                     html  
    cor.test                                html  
    cov.wt                                  html  
    cpgram                                  html  
    cutree                                  html  
    decompose                               html  
    delete.response                         html  
    dendrapply                              html  
    dendrogram                              html  
    density                                 html  
    deriv                                   html  
    deviance                                html  
    df.residual                             html  
    diffinv                                 html  
    dist                                    html  
    dummy.coef                              html  
    ecdf                                    html  
    eff.aovlist                             html  
    effects                                 html  
    embed                                   html  
    expand.model.frame                      html  
    extractAIC                              html  
    factanal                                html  
    factor.scope                            html  
    family                                  html  
    fft                                     html  
    filter                                  html  
    fisher.test                             html  
    fitted.values                           html  
    fivenum                                 html  
    fligner.test                            html  
    formula                                 html  
    formula.nls                             html  
    friedman.test                           html  
    ftable                                  html  
    ftable.formula                          html  
    getInitial                              html  
    glm                                     html  
    glm.control                             html  
    glm.summaries                           html  
    hclust                                  html  
    heatmap                                 html  
    identify.hclust                         html  
    influence.measures                      html  
    integrate                               html  
    interaction.plot                        html  
    is.empty                                html  
    isoreg                                  html  
    kernapply                               html  
    kernel                                  html  
    kmeans                                  html  
    kruskal.test                            html  
    ks.test                                 html  
    ksmooth                                 html  
    lag                                     html  
    lag.plot                                html  
    line                                    html  
    listof                                  html  
    lm                                      html  
    lm.influence                            html  
    lm.summaries                            html  
    lmfit                                   html  
    loadings                                html  
    loess                                   html  
    loess.control                           html  
    logLik                                  html  
    loglin                                  html  
    lowess                                  html  
    ls.diag                                 html  
    ls.print                                html  
    lsfit                                   html  
    mad                                     html  
    mahalanobis                             html  
    make.link                               html  
    makepredictcall                         html  
    manova                                  html  
    mantelhaen.test                         html  
    mauchly.test                            html  
    mcnemar.test                            html  
    median                                  html  
    medpolish                               html  
    model.extract                           html  
    model.frame                             html  
    model.matrix                            html  
    model.tables                            html  
    monthplot                               html  
    mood.test                               html  
    na.action                               html  
    na.contiguous                           html  
    na.fail                                 html  
    nafns                                   html  
    naprint                                 html  
    nextn                                   html  
    nlm                                     html  
    nlminb                                  html  
    nls                                     html  
    nls.control                             html  
    nobs                                    html  
    numericDeriv                            html  
    offset                                  html  
    oneway.test                             html  
    optim                                   html  
    optimize                                html  
    order.dendrogram                        html  
    p.adjust                                html  
    pairwise.prop.test                      html  
    pairwise.t.test                         html  
    pairwise.table                          html  
    pairwise.wilcox.test                    html  
    plot.HoltWinters                        html  
    plot.acf                                html  
    plot.density                            html  
    plot.isoreg                             html  
    plot.lm                                 html  
    plot.ppr                                html  
    plot.profile                            html  
    plot.profile.nls                        html  
    plot.spec                               html  
    plot.stepfun                            html  
    plot.ts                                 html  
    poisson.test                            html  
    poly                                    html  
    power                                   html  
    power.anova.test                        html  
    power.prop.test                         html  
    power.t.test                            html  
    pp.test                                 html  
    ppoints                                 html  
    ppr                                     html  
    prcomp                                  html  
    predict.HoltWinters                     html  
    predict                                 html  
    predict.arima                           html  
    predict.glm                             html  
    predict.lm                              html  
    predict.loess                           html  
    predict.nls                             html  
    predict.smooth.spline                   html  
    preplot                                 html  
    princomp                                html  
    print.power.htest                       html  
    print.ts                                html  
    printCoefmat                            html  
    profile                                 html  
    profile.glm                             html  
    profile.nls                             html  
    proj                                    html  
    prop.test                               html  
    prop.trend.test                         html  
    qqnorm                                  html  
    quade.test                              html  
    quantile                                html  
    r2dtable                                html  
    rWishart                                html  
    read.ftable                             html  
    rect.hclust                             html  
    relevel                                 html  
    reorder.dendrogram                      html  
    reorder.factor                          html  
    replications                            html  
    reshape                                 html  
    residuals                               html  
    runmed                                  html  
    scatter.smooth                          html  
    screeplot                               html  
    sd                                      html  
    se.contrast                             html  
    selfStart                               html  
    setNames                                html  
    shapiro.test                            html  
    sigma                                   html  
    simulate                                html  
    smooth                                  html  
    smooth.spline                           html  
    smoothEnds                              html  
    sortedXyData                            html  
    spec.ar                                 html  
    spec.pgram                              html  
    spec.taper                              html  
    spectrum                                html  
    splinefun                               html  
    start                                   html  
    stat.anova                              html  
    stats-defunct                           html  
    stats-deprecated                        html  
    stats-package                           html  
    step                                    html  
    stepfun                                 html  
    stl                                     html  
    stlmethods                              html  
    summary.aov                             html  
    summary.glm                             html  
    summary.lm                              html  
    summary.manova                          html  
    summary.nls                             html  
    summary.princomp                        html  
    supsmu                                  html  
    symnum                                  html  
    t.test                                  html  
    termplot                                html  
    terms                                   html  
    terms.formula                           html  
    terms.object                            html  
    time                                    html  
    toeplitz                                html  
    ts-methods                              html  
    ts                                      html  
    ts.plot                                 html  
    ts.union                                html  
    tsSmooth                                html  
    tsdiag                                  html  
    tsp                                     html  
    uniroot                                 html  
    update                                  html  
    update.formula                          html  
    var.test                                html  
    varimax                                 html  
    vcov                                    html  
    weighted.mean                           html  
    weighted.residuals                      html  
    weights                                 html  
    wilcox.test                             html  
    window                                  html  
    xtabs                                   html  
    zC                                      html  
  converting help for package 'datasets'
    AirPassengers                           html  
    BJsales                                 html  
    BOD                                     html  
    ChickWeight                             html  
    DNase                                   html  
    EuStockMarkets                          html  
    Formaldehyde                            html  
    HairEyeColor                            html  
    Harman23.cor                            html  
    Harman74.cor                            html  
    Indometh                                html  
    InsectSprays                            html  
    JohnsonJohnson                          html  
    LakeHuron                               html  
    LifeCycleSavings                        html  
    Loblolly                                html  
    Nile                                    html  
    Orange                                  html  
    OrchardSprays                           html  
    PlantGrowth                             html  
    Puromycin                               html  
    Theoph                                  html  
    Titanic                                 html  
    ToothGrowth                             html  
    UCBAdmissions                           html  
    UKDriverDeaths                          html  
    UKLungDeaths                            html  
    UKgas                                   html  
    USAccDeaths                             html  
    USArrests                               html  
    USJudgeRatings                          html  
    USPersonalExpenditure                   html  
    VADeaths                                html  
    WWWusage                                html  
    WorldPhones                             html  
    ability.cov                             html  
    airmiles                                html  
    airquality                              html  
    anscombe                                html  
    attenu                                  html  
    attitude                                html  
    austres                                 html  
    beavers                                 html  
    cars                                    html  
    chickwts                                html  
    co2                                     html  
    crimtab                                 html  
    datasets-package                        html  
    discoveries                             html  
    esoph                                   html  
    euro                                    html  
    eurodist                                html  
    faithful                                html  
    freeny                                  html  
    infert                                  html  
    iris                                    html  
    islands                                 html  
    lh                                      html  
    longley                                 html  
    lynx                                    html  
    morley                                  html  
    mtcars                                  html  
    nhtemp                                  html  
    nottem                                  html  
    npk                                     html  
    occupationalStatus                      html  
    precip                                  html  
    presidents                              html  
    pressure                                html  
    quakes                                  html  
    randu                                   html  
    rivers                                  html  
    rock                                    html  
    sleep                                   html  
    stackloss                               html  
    state                                   html  
    sunspot.month                           html  
    sunspot.year                            html  
    sunspots                                html  
    swiss                                   html  
    treering                                html  
    trees                                   html  
    uspop                                   html  
    volcano                                 html  
    warpbreaks                              html  
    women                                   html  
    zCO2                                    html  
  converting help for package 'methods'
    BasicClasses                            html  
    Classes                                 html  
    Classes_Details                         html  
    Documentation                           html  
    EmptyMethodsList-class                  html  
    EnvironmentClass                        html  
    GenericFunctions                        html  
    Introduction                            html  
    LanguageClasses                         html  
    LinearMethodsList-class                 html  
    MethodDefinition-class                  html  
    MethodSupport                           html  
    MethodWithNext-class                    html  
    Methods                                 html  
    MethodsList-class                       html  
    MethodsList                             html  
    Methods_Details                         html  
    Methods_for_Nongenerics                 html  
    Methods_for_S3                          html  
    NextMethod                              html  
    ObjectsWithPackage-class                html  
    RClassUtils                             html  
    RMethodUtils                            html  
    S3Part                                  html  
    S4groupGeneric                          html  
    SClassExtension-class                   html  
    StructureClasses                        html  
    TraceClasses                            html  
    as                                      html  
    callGeneric                             html  
    canCoerce                               html  
    cbind2                                  html  
    className                               html  
    classRepresentation-class               html  
    classesToAM                             html  
    dotsMethods                             html  
    evalSource                              html  
    findClass                               html  
    findMethods                             html  
    fixPrevious                             html  
    genericFunction-class                   html  
    getClass                                html  
    getMethod                               html  
    getPackageName                          html  
    hasArg                                  html  
    implicitGeneric                         html  
    inheritedSlotNames                      html  
    initialize-methods                      html  
    is                                      html  
    isSealedMethod                          html  
    languageEl                              html  
    localRefClass                           html  
    method.skeleton                         html  
    methodUtilities                         html  
    methods-defunct                         html  
    methods-deprecated                      html  
    methods-package                         html  
    new                                     html  
    nonStructure-class                      html  
    promptClass                             html  
    promptMethods                           html  
    refClass                                html  
    removeMethod                            html  
    representation                          html  
    selectSuperClasses                      html  
    setAs                                   html  
    setClass                                html  
    setClassUnion                           html  
    setGeneric                              html  
    setGroupGeneric                         html  
    setIs                                   html  
    setLoadActions                          html  
    setMethod                               html  
    setOldClass                             html  
    setSClass                               html  
    show                                    html  
    showMethods                             html  
    signature-class                         html  
    slot                                    html  
    stdRefClass                             html  
    substituteDirect                        html  
    testInheritedMethods                    html  
    validObject                             html  
    zBasicFunsList                          html  
  converting help for package 'grid'
    Grid                                    html  
    absolute.size                           html  
    arrow                                   html  
    as.mask                                 html  
    calcStringMetric                        html  
    current.viewport                        html  
    dataViewport                            html  
    depth                                   html  
    deviceLoc                               html  
    drawDetails                             html  
    editDetails                             html  
    editViewport                            html  
    explode                                 html  
    gEdit                                   html  
    gPath                                   html  
    getNames                                html  
    gpar                                    html  
    grid-defunct                            html  
    grid-internal                           html  
    grid-package                            html  
    grid.DLapply                            html  
    grid.add                                html  
    grid.bezier                             html  
    grid.cap                                html  
    grid.circle                             html  
    grid.clip                               html  
    grid.convert                            html  
    grid.copy                               html  
    grid.curve                              html  
    grid.delay                              html  
    grid.display.list                       html  
    grid.draw                               html  
    grid.edit                               html  
    grid.force                              html  
    grid.frame                              html  
    grid.function                           html  
    grid.get                                html  
    grid.glyph                              html  
    grid.grab                               html  
    grid.grep                               html  
    grid.grill                              html  
    grid.grob                               html  
    grid.group                              html  
    grid.layout                             html  
    grid.lines                              html  
    grid.locator                            html  
    grid.ls                                 html  
    grid.move.to                            html  
    grid.newpage                            html  
    grid.null                               html  
    grid.pack                               html  
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  converting help for package 'splines'
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  converting help for package 'stats4'
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  converting help for package 'tcltk'
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    tk_choose.dir                           html  
    tk_choose.files                         html  
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  converting help for package 'compiler'
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  converting help for package 'parallel'
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make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/Recommended'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library/Recommended'
begin installing recommended package MASS
* installing *source* package 'MASS' ...
** package 'MASS' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpFjmriA/R.INSTALL4446d93da5e/MASS/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c MASS.c -o MASS.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c lqs.c -o lqs.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o MASS.so MASS.o lqs.o -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpFjmriA/R.INSTALL4446d93da5e/MASS/src'
installing to /builddir/build/BUILD/R-4.4.2/library/MASS/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'MASS'
    finding HTML links ... done
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    wtloss                                  html  
** building package indices
** testing if installed package can be loaded
* DONE (MASS)
Making 'packages.html' ... done
begin installing recommended package lattice
* installing *source* package 'lattice' ...
** package 'lattice' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/Rtmpq6uRrM/R.INSTALL447d2e56014/lattice/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c threeDplot.c -o threeDplot.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o lattice.so init.o threeDplot.o -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/Rtmpq6uRrM/R.INSTALL447d2e56014/lattice/src'
installing to /builddir/build/BUILD/R-4.4.2/library/lattice/libs
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'lattice'
    finding HTML links ... done
    Lattice                                 html  
    Rows                                    html  
    USMortality                             html  
    axis.default                            html  
    banking                                 html  
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    barley                                  html  
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    lattice.options                         html  
    latticeParseFormula                     html  
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    make.groups                             html  
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    prepanel.functions                      html  
    print.trellis                           html  
    qq                                      html  
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    simpleKey                               html  
    simpleTheme                             html  
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    trellis.device                          html  
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    trellis.par.get                         html  
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    utilities.3d                            html  
    xyplot                                  html  
    xyplot.ts                               html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (lattice)
Making 'packages.html' ... done
begin installing recommended package Matrix
* installing *source* package 'Matrix' ...
** package 'Matrix' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Csparse.c -o Csparse.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c attrib.c -o attrib.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bind.c -o bind.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cholmod-common.c -o cholmod-common.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cholmod-etc.c -o cholmod-etc.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coerce.c -o coerce.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cs-etc.c -o cs-etc.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dense.c -o dense.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c determinant.c -o determinant.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c expm.c -o expm.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c factor.c -o factor.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c idz.c -o idz.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c kappa.c -o kappa.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c matmult.c -o matmult.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c objects.c -o objects.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c perm.c -o perm.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c solve.c -o solve.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sparse.c -o sparse.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c subassign.c -o subassign.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c subscript.c -o subscript.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c utils-R.c -o utils-R.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c utils.c -o utils.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c validity.c -o validity.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config"  -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c vector.c -o vector.o
cd SuiteSparse/CHOLMOD && make clean all CC="gcc" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.4.2/include\" -I\"/builddir/build/BUILD/R-4.4.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib"
make[4]: Entering directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/CHOLMOD'
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Check/cholmod_check.c -o Check/cholmod_check.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Check/cholmod_l_check.c -o Check/cholmod_l_check.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Check/cholmod_read.c -o Check/cholmod_read.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Check/cholmod_l_read.c -o Check/cholmod_l_read.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Check/cholmod_write.c -o Check/cholmod_write.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Check/cholmod_l_write.c -o Check/cholmod_l_write.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_amd.c -o Cholesky/cholmod_amd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_amd.c -o Cholesky/cholmod_l_amd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_analyze.c -o Cholesky/cholmod_analyze.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_analyze.c -o Cholesky/cholmod_l_analyze.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_colamd.c -o Cholesky/cholmod_colamd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_colamd.c -o Cholesky/cholmod_l_colamd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_etree.c -o Cholesky/cholmod_etree.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_etree.c -o Cholesky/cholmod_l_etree.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_factorize.c -o Cholesky/cholmod_factorize.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_factorize.c -o Cholesky/cholmod_l_factorize.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_postorder.c -o Cholesky/cholmod_postorder.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_postorder.c -o Cholesky/cholmod_l_postorder.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_rcond.c -o Cholesky/cholmod_rcond.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_rcond.c -o Cholesky/cholmod_l_rcond.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_resymbol.c -o Cholesky/cholmod_resymbol.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_resymbol.c -o Cholesky/cholmod_l_resymbol.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_rowcolcounts.c -o Cholesky/cholmod_rowcolcounts.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_rowcolcounts.c -o Cholesky/cholmod_l_rowcolcounts.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_rowfac.c -o Cholesky/cholmod_rowfac.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_rowfac.c -o Cholesky/cholmod_l_rowfac.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_solve.c -o Cholesky/cholmod_solve.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_solve.c -o Cholesky/cholmod_l_solve.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_spsolve.c -o Cholesky/cholmod_spsolve.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Cholesky/cholmod_l_spsolve.c -o Cholesky/cholmod_l_spsolve.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_aat.c -o Utility/cholmod_aat.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_aat.c -o Utility/cholmod_l_aat.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_add.c -o Utility/cholmod_add.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_add.c -o Utility/cholmod_l_add.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_add_size_t.c -o Utility/cholmod_add_size_t.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_add_size_t.c -o Utility/cholmod_l_add_size_t.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_alloc_factor.c -o Utility/cholmod_alloc_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_alloc_factor.c -o Utility/cholmod_l_alloc_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_alloc_work.c -o Utility/cholmod_alloc_work.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_alloc_work.c -o Utility/cholmod_l_alloc_work.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_allocate_dense.c -o Utility/cholmod_allocate_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_dense.c -o Utility/cholmod_l_allocate_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_allocate_factor.c -o Utility/cholmod_allocate_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_factor.c -o Utility/cholmod_l_allocate_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_allocate_sparse.c -o Utility/cholmod_allocate_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_sparse.c -o Utility/cholmod_l_allocate_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_allocate_triplet.c -o Utility/cholmod_allocate_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_triplet.c -o Utility/cholmod_l_allocate_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_allocate_work.c -o Utility/cholmod_allocate_work.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_work.c -o Utility/cholmod_l_allocate_work.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_band.c -o Utility/cholmod_band.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_band.c -o Utility/cholmod_l_band.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_band_nnz.c -o Utility/cholmod_band_nnz.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_band_nnz.c -o Utility/cholmod_l_band_nnz.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_calloc.c -o Utility/cholmod_calloc.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_calloc.c -o Utility/cholmod_l_calloc.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_change_factor.c -o Utility/cholmod_change_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_change_factor.c -o Utility/cholmod_l_change_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_clear_flag.c -o Utility/cholmod_clear_flag.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_clear_flag.c -o Utility/cholmod_l_clear_flag.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_copy.c -o Utility/cholmod_copy.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_copy.c -o Utility/cholmod_l_copy.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_copy_dense.c -o Utility/cholmod_copy_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_dense.c -o Utility/cholmod_l_copy_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_copy_dense2.c -o Utility/cholmod_copy_dense2.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_dense2.c -o Utility/cholmod_l_copy_dense2.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_copy_factor.c -o Utility/cholmod_copy_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_factor.c -o Utility/cholmod_l_copy_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_copy_sparse.c -o Utility/cholmod_copy_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_sparse.c -o Utility/cholmod_l_copy_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_copy_triplet.c -o Utility/cholmod_copy_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_triplet.c -o Utility/cholmod_l_copy_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_cumsum.c -o Utility/cholmod_cumsum.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_cumsum.c -o Utility/cholmod_l_cumsum.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_dbound.c -o Utility/cholmod_dbound.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_dbound.c -o Utility/cholmod_l_dbound.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_defaults.c -o Utility/cholmod_defaults.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_defaults.c -o Utility/cholmod_l_defaults.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_dense_nnz.c -o Utility/cholmod_dense_nnz.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_dense_nnz.c -o Utility/cholmod_l_dense_nnz.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_dense_to_sparse.c -o Utility/cholmod_dense_to_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_dense_to_sparse.c -o Utility/cholmod_l_dense_to_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_divcomplex.c -o Utility/cholmod_divcomplex.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_divcomplex.c -o Utility/cholmod_l_divcomplex.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_ensure_dense.c -o Utility/cholmod_ensure_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_ensure_dense.c -o Utility/cholmod_l_ensure_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_error.c -o Utility/cholmod_error.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_error.c -o Utility/cholmod_l_error.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_eye.c -o Utility/cholmod_eye.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_eye.c -o Utility/cholmod_l_eye.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_factor_to_sparse.c -o Utility/cholmod_factor_to_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_factor_to_sparse.c -o Utility/cholmod_l_factor_to_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_finish.c -o Utility/cholmod_finish.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_finish.c -o Utility/cholmod_l_finish.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_free.c -o Utility/cholmod_free.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_free.c -o Utility/cholmod_l_free.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_free_dense.c -o Utility/cholmod_free_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_free_dense.c -o Utility/cholmod_l_free_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_free_factor.c -o Utility/cholmod_free_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_free_factor.c -o Utility/cholmod_l_free_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_free_sparse.c -o Utility/cholmod_free_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_free_sparse.c -o Utility/cholmod_l_free_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_free_triplet.c -o Utility/cholmod_free_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_free_triplet.c -o Utility/cholmod_l_free_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_free_work.c -o Utility/cholmod_free_work.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_free_work.c -o Utility/cholmod_l_free_work.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_hypot.c -o Utility/cholmod_hypot.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_hypot.c -o Utility/cholmod_l_hypot.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_malloc.c -o Utility/cholmod_malloc.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_malloc.c -o Utility/cholmod_l_malloc.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_maxrank.c -o Utility/cholmod_maxrank.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_maxrank.c -o Utility/cholmod_l_maxrank.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_memdebug.c -o Utility/cholmod_memdebug.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_mult_size_t.c -o Utility/cholmod_mult_size_t.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_mult_size_t.c -o Utility/cholmod_l_mult_size_t.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_mult_uint64_t.c -o Utility/cholmod_mult_uint64_t.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_nnz.c -o Utility/cholmod_nnz.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_nnz.c -o Utility/cholmod_l_nnz.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_ones.c -o Utility/cholmod_ones.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_ones.c -o Utility/cholmod_l_ones.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_pack_factor.c -o Utility/cholmod_pack_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_pack_factor.c -o Utility/cholmod_l_pack_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_ptranspose.c -o Utility/cholmod_ptranspose.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_ptranspose.c -o Utility/cholmod_l_ptranspose.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_realloc.c -o Utility/cholmod_realloc.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_realloc.c -o Utility/cholmod_l_realloc.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_realloc_multiple.c -o Utility/cholmod_realloc_multiple.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_realloc_multiple.c -o Utility/cholmod_l_realloc_multiple.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_reallocate_column.c -o Utility/cholmod_reallocate_column.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_reallocate_column.c -o Utility/cholmod_l_reallocate_column.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_reallocate_factor.c -o Utility/cholmod_reallocate_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_reallocate_factor.c -o Utility/cholmod_l_reallocate_factor.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_reallocate_sparse.c -o Utility/cholmod_reallocate_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_reallocate_sparse.c -o Utility/cholmod_l_reallocate_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_reallocate_triplet.c -o Utility/cholmod_reallocate_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_reallocate_triplet.c -o Utility/cholmod_l_reallocate_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_sbound.c -o Utility/cholmod_sbound.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_sbound.c -o Utility/cholmod_l_sbound.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_score_comp.c -o Utility/cholmod_score_comp.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_score_comp.c -o Utility/cholmod_l_score_comp.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_set_empty.c -o Utility/cholmod_set_empty.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_set_empty.c -o Utility/cholmod_l_set_empty.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_sort.c -o Utility/cholmod_sort.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_sort.c -o Utility/cholmod_l_sort.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_sparse_to_dense.c -o Utility/cholmod_sparse_to_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_sparse_to_dense.c -o Utility/cholmod_l_sparse_to_dense.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_sparse_to_triplet.c -o Utility/cholmod_sparse_to_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_sparse_to_triplet.c -o Utility/cholmod_l_sparse_to_triplet.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_speye.c -o Utility/cholmod_speye.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_speye.c -o Utility/cholmod_l_speye.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_spzeros.c -o Utility/cholmod_spzeros.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_spzeros.c -o Utility/cholmod_l_spzeros.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_start.c -o Utility/cholmod_start.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_start.c -o Utility/cholmod_l_start.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_transpose.c -o Utility/cholmod_transpose.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_transpose.c -o Utility/cholmod_l_transpose.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_transpose_sym.c -o Utility/cholmod_transpose_sym.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_transpose_sym.c -o Utility/cholmod_l_transpose_sym.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_transpose_unsym.c -o Utility/cholmod_transpose_unsym.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_transpose_unsym.c -o Utility/cholmod_l_transpose_unsym.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_triplet_to_sparse.c -o Utility/cholmod_triplet_to_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_triplet_to_sparse.c -o Utility/cholmod_l_triplet_to_sparse.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_version.c -o Utility/cholmod_version.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_version.c -o Utility/cholmod_l_version.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_xtype.c -o Utility/cholmod_xtype.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_xtype.c -o Utility/cholmod_l_xtype.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_zeros.c -o Utility/cholmod_zeros.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Utility/cholmod_l_zeros.c -o Utility/cholmod_l_zeros.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_drop.c -o MatrixOps/cholmod_drop.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_drop.c -o MatrixOps/cholmod_l_drop.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_horzcat.c -o MatrixOps/cholmod_horzcat.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_horzcat.c -o MatrixOps/cholmod_l_horzcat.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_norm.c -o MatrixOps/cholmod_norm.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_norm.c -o MatrixOps/cholmod_l_norm.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_scale.c -o MatrixOps/cholmod_scale.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_scale.c -o MatrixOps/cholmod_l_scale.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_sdmult.c -o MatrixOps/cholmod_sdmult.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_sdmult.c -o MatrixOps/cholmod_l_sdmult.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_ssmult.c -o MatrixOps/cholmod_ssmult.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_ssmult.c -o MatrixOps/cholmod_l_ssmult.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_submatrix.c -o MatrixOps/cholmod_submatrix.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_submatrix.c -o MatrixOps/cholmod_l_submatrix.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_symmetry.c -o MatrixOps/cholmod_symmetry.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_symmetry.c -o MatrixOps/cholmod_l_symmetry.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_vertcat.c -o MatrixOps/cholmod_vertcat.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_vertcat.c -o MatrixOps/cholmod_l_vertcat.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Modify/cholmod_rowadd.c -o Modify/cholmod_rowadd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Modify/cholmod_l_rowadd.c -o Modify/cholmod_l_rowadd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Modify/cholmod_rowdel.c -o Modify/cholmod_rowdel.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Modify/cholmod_l_rowdel.c -o Modify/cholmod_l_rowdel.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Modify/cholmod_updown.c -o Modify/cholmod_updown.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Modify/cholmod_l_updown.c -o Modify/cholmod_l_updown.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_camd.c -o Partition/cholmod_camd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_l_camd.c -o Partition/cholmod_l_camd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_ccolamd.c -o Partition/cholmod_ccolamd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_l_ccolamd.c -o Partition/cholmod_l_ccolamd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_csymamd.c -o Partition/cholmod_csymamd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_l_csymamd.c -o Partition/cholmod_l_csymamd.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_metis.c -o Partition/cholmod_metis.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_l_metis.c -o Partition/cholmod_l_metis.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_metis_wrapper.c -o Partition/cholmod_metis_wrapper.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_nesdis.c -o Partition/cholmod_nesdis.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Partition/cholmod_l_nesdis.c -o Partition/cholmod_l_nesdis.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Supernodal/cholmod_super_numeric.c -o Supernodal/cholmod_super_numeric.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Supernodal/cholmod_l_super_numeric.c -o Supernodal/cholmod_l_super_numeric.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Supernodal/cholmod_super_solve.c -o Supernodal/cholmod_super_solve.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Supernodal/cholmod_l_super_solve.c -o Supernodal/cholmod_l_super_solve.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Supernodal/cholmod_super_symbolic.c -o Supernodal/cholmod_super_symbolic.o
gcc -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Supernodal/cholmod_l_super_symbolic.c -o Supernodal/cholmod_l_super_symbolic.o
rm -f CHOLMOD.a
ar -cr CHOLMOD.a Check/cholmod_check.o Check/cholmod_l_check.o Check/cholmod_read.o Check/cholmod_l_read.o Check/cholmod_write.o Check/cholmod_l_write.o Cholesky/cholmod_amd.o Cholesky/cholmod_l_amd.o Cholesky/cholmod_analyze.o Cholesky/cholmod_l_analyze.o Cholesky/cholmod_colamd.o Cholesky/cholmod_l_colamd.o Cholesky/cholmod_etree.o Cholesky/cholmod_l_etree.o Cholesky/cholmod_factorize.o Cholesky/cholmod_l_factorize.o Cholesky/cholmod_postorder.o Cholesky/cholmod_l_postorder.o Cholesky/cholmod_rcond.o Cholesky/cholmod_l_rcond.o Cholesky/cholmod_resymbol.o Cholesky/cholmod_l_resymbol.o Cholesky/cholmod_rowcolcounts.o Cholesky/cholmod_l_rowcolcounts.o Cholesky/cholmod_rowfac.o Cholesky/cholmod_l_rowfac.o Cholesky/cholmod_solve.o Cholesky/cholmod_l_solve.o Cholesky/cholmod_spsolve.o Cholesky/cholmod_l_spsolve.o Utility/cholmod_aat.o Utility/cholmod_l_aat.o Utility/cholmod_add.o Utility/cholmod_l_add.o Utility/cholmod_add_size_t.o Utility/cholmod_l_add_size_t.o Utility/cholmod_alloc_factor.o Utility/cholmod_l_alloc_factor.o Utility/cholmod_alloc_work.o Utility/cholmod_l_alloc_work.o Utility/cholmod_allocate_dense.o Utility/cholmod_l_allocate_dense.o Utility/cholmod_allocate_factor.o Utility/cholmod_l_allocate_factor.o Utility/cholmod_allocate_sparse.o Utility/cholmod_l_allocate_sparse.o Utility/cholmod_allocate_triplet.o Utility/cholmod_l_allocate_triplet.o Utility/cholmod_allocate_work.o Utility/cholmod_l_allocate_work.o Utility/cholmod_band.o Utility/cholmod_l_band.o Utility/cholmod_band_nnz.o Utility/cholmod_l_band_nnz.o Utility/cholmod_calloc.o Utility/cholmod_l_calloc.o Utility/cholmod_change_factor.o Utility/cholmod_l_change_factor.o Utility/cholmod_clear_flag.o Utility/cholmod_l_clear_flag.o Utility/cholmod_copy.o Utility/cholmod_l_copy.o Utility/cholmod_copy_dense.o Utility/cholmod_l_copy_dense.o Utility/cholmod_copy_dense2.o Utility/cholmod_l_copy_dense2.o Utility/cholmod_copy_factor.o Utility/cholmod_l_copy_factor.o Utility/cholmod_copy_sparse.o Utility/cholmod_l_copy_sparse.o Utility/cholmod_copy_triplet.o Utility/cholmod_l_copy_triplet.o Utility/cholmod_cumsum.o Utility/cholmod_l_cumsum.o Utility/cholmod_dbound.o Utility/cholmod_l_dbound.o Utility/cholmod_defaults.o Utility/cholmod_l_defaults.o Utility/cholmod_dense_nnz.o Utility/cholmod_l_dense_nnz.o Utility/cholmod_dense_to_sparse.o Utility/cholmod_l_dense_to_sparse.o Utility/cholmod_divcomplex.o Utility/cholmod_l_divcomplex.o Utility/cholmod_ensure_dense.o Utility/cholmod_l_ensure_dense.o Utility/cholmod_error.o Utility/cholmod_l_error.o Utility/cholmod_eye.o Utility/cholmod_l_eye.o Utility/cholmod_factor_to_sparse.o Utility/cholmod_l_factor_to_sparse.o Utility/cholmod_finish.o Utility/cholmod_l_finish.o Utility/cholmod_free.o Utility/cholmod_l_free.o Utility/cholmod_free_dense.o Utility/cholmod_l_free_dense.o Utility/cholmod_free_factor.o Utility/cholmod_l_free_factor.o Utility/cholmod_free_sparse.o Utility/cholmod_l_free_sparse.o Utility/cholmod_free_triplet.o Utility/cholmod_l_free_triplet.o Utility/cholmod_free_work.o Utility/cholmod_l_free_work.o Utility/cholmod_hypot.o Utility/cholmod_l_hypot.o Utility/cholmod_malloc.o Utility/cholmod_l_malloc.o Utility/cholmod_maxrank.o Utility/cholmod_l_maxrank.o Utility/cholmod_memdebug.o Utility/cholmod_mult_size_t.o Utility/cholmod_l_mult_size_t.o Utility/cholmod_mult_uint64_t.o Utility/cholmod_nnz.o Utility/cholmod_l_nnz.o Utility/cholmod_ones.o Utility/cholmod_l_ones.o Utility/cholmod_pack_factor.o Utility/cholmod_l_pack_factor.o Utility/cholmod_ptranspose.o Utility/cholmod_l_ptranspose.o Utility/cholmod_realloc.o Utility/cholmod_l_realloc.o Utility/cholmod_realloc_multiple.o Utility/cholmod_l_realloc_multiple.o Utility/cholmod_reallocate_column.o Utility/cholmod_l_reallocate_column.o Utility/cholmod_reallocate_factor.o Utility/cholmod_l_reallocate_factor.o Utility/cholmod_reallocate_sparse.o Utility/cholmod_l_reallocate_sparse.o Utility/cholmod_reallocate_triplet.o Utility/cholmod_l_reallocate_triplet.o Utility/cholmod_sbound.o Utility/cholmod_l_sbound.o Utility/cholmod_score_comp.o Utility/cholmod_l_score_comp.o Utility/cholmod_set_empty.o Utility/cholmod_l_set_empty.o Utility/cholmod_sort.o Utility/cholmod_l_sort.o Utility/cholmod_sparse_to_dense.o Utility/cholmod_l_sparse_to_dense.o Utility/cholmod_sparse_to_triplet.o Utility/cholmod_l_sparse_to_triplet.o Utility/cholmod_speye.o Utility/cholmod_l_speye.o Utility/cholmod_spzeros.o Utility/cholmod_l_spzeros.o Utility/cholmod_start.o Utility/cholmod_l_start.o Utility/cholmod_transpose.o Utility/cholmod_l_transpose.o Utility/cholmod_transpose_sym.o Utility/cholmod_l_transpose_sym.o Utility/cholmod_transpose_unsym.o Utility/cholmod_l_transpose_unsym.o Utility/cholmod_triplet_to_sparse.o Utility/cholmod_l_triplet_to_sparse.o Utility/cholmod_version.o Utility/cholmod_l_version.o Utility/cholmod_xtype.o Utility/cholmod_l_xtype.o Utility/cholmod_zeros.o Utility/cholmod_l_zeros.o MatrixOps/cholmod_drop.o MatrixOps/cholmod_l_drop.o MatrixOps/cholmod_horzcat.o MatrixOps/cholmod_l_horzcat.o MatrixOps/cholmod_norm.o MatrixOps/cholmod_l_norm.o MatrixOps/cholmod_scale.o MatrixOps/cholmod_l_scale.o MatrixOps/cholmod_sdmult.o MatrixOps/cholmod_l_sdmult.o MatrixOps/cholmod_ssmult.o MatrixOps/cholmod_l_ssmult.o MatrixOps/cholmod_submatrix.o MatrixOps/cholmod_l_submatrix.o MatrixOps/cholmod_symmetry.o MatrixOps/cholmod_l_symmetry.o MatrixOps/cholmod_vertcat.o MatrixOps/cholmod_l_vertcat.o Modify/cholmod_rowadd.o Modify/cholmod_l_rowadd.o Modify/cholmod_rowdel.o Modify/cholmod_l_rowdel.o Modify/cholmod_updown.o Modify/cholmod_l_updown.o Partition/cholmod_camd.o Partition/cholmod_l_camd.o Partition/cholmod_ccolamd.o Partition/cholmod_l_ccolamd.o Partition/cholmod_csymamd.o Partition/cholmod_l_csymamd.o Partition/cholmod_metis.o Partition/cholmod_l_metis.o Partition/cholmod_metis_wrapper.o Partition/cholmod_nesdis.o Partition/cholmod_l_nesdis.o Supernodal/cholmod_super_numeric.o Supernodal/cholmod_l_super_numeric.o Supernodal/cholmod_super_solve.o Supernodal/cholmod_l_super_solve.o Supernodal/cholmod_super_symbolic.o Supernodal/cholmod_l_super_symbolic.o
ranlib CHOLMOD.a
make[4]: Leaving directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/CHOLMOD'
cd SuiteSparse/CCOLAMD && make clean all CC="gcc" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.4.2/include\" -I\"/builddir/build/BUILD/R-4.4.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib"
make[4]: Entering directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/CCOLAMD'
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/ccolamd.c -o Source/ccolamd.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/ccolamd_l.c -o Source/ccolamd_l.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/ccolamd_version.c -o Source/ccolamd_version.o
rm -f CCOLAMD.a
ar -cr CCOLAMD.a Source/ccolamd.o Source/ccolamd_l.o Source/ccolamd_version.o
ranlib CCOLAMD.a
make[4]: Leaving directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/CCOLAMD'
cd SuiteSparse/CAMD && make clean all CC="gcc" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.4.2/include\" -I\"/builddir/build/BUILD/R-4.4.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib"
make[4]: Entering directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/CAMD'
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_1.c -o Source/camd_1.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l1.c -o Source/camd_l1.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_2.c -o Source/camd_2.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l2.c -o Source/camd_l2.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_aat.c -o Source/camd_aat.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_aat.c -o Source/camd_l_aat.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_control.c -o Source/camd_control.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_control.c -o Source/camd_l_control.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_defaults.c -o Source/camd_defaults.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_defaults.c -o Source/camd_l_defaults.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_dump.c -o Source/camd_dump.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_dump.c -o Source/camd_l_dump.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_info.c -o Source/camd_info.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_info.c -o Source/camd_l_info.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_order.c -o Source/camd_order.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_order.c -o Source/camd_l_order.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_postorder.c -o Source/camd_postorder.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_postorder.c -o Source/camd_l_postorder.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_preprocess.c -o Source/camd_preprocess.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_preprocess.c -o Source/camd_l_preprocess.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_valid.c -o Source/camd_valid.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_l_valid.c -o Source/camd_l_valid.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/camd_version.c -o Source/camd_version.o
rm -f CAMD.a
ar -cr CAMD.a Source/camd_1.o Source/camd_l1.o Source/camd_2.o Source/camd_l2.o Source/camd_aat.o Source/camd_l_aat.o Source/camd_control.o Source/camd_l_control.o Source/camd_defaults.o Source/camd_l_defaults.o Source/camd_dump.o Source/camd_l_dump.o Source/camd_info.o Source/camd_l_info.o Source/camd_order.o Source/camd_l_order.o Source/camd_postorder.o Source/camd_l_postorder.o Source/camd_preprocess.o Source/camd_l_preprocess.o Source/camd_valid.o Source/camd_l_valid.o Source/camd_version.o
ranlib CAMD.a
make[4]: Leaving directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/CAMD'
cd SuiteSparse/COLAMD && make clean all CC="gcc" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.4.2/include\" -I\"/builddir/build/BUILD/R-4.4.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib"
make[4]: Entering directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/COLAMD'
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/colamd.c -o Source/colamd.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/colamd_l.c -o Source/colamd_l.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/colamd_version.c -o Source/colamd_version.o
rm -f COLAMD.a
ar -cr COLAMD.a Source/colamd.o Source/colamd_l.o Source/colamd_version.o
ranlib COLAMD.a
make[4]: Leaving directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/COLAMD'
cd SuiteSparse/AMD && make clean all CC="gcc" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.4.2/include\" -I\"/builddir/build/BUILD/R-4.4.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib"
make[4]: Entering directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/AMD'
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_1.c -o Source/amd_1.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l1.c -o Source/amd_l1.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_2.c -o Source/amd_2.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l2.c -o Source/amd_l2.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_aat.c -o Source/amd_aat.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_aat.c -o Source/amd_l_aat.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_control.c -o Source/amd_control.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_control.c -o Source/amd_l_control.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_defaults.c -o Source/amd_defaults.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_defaults.c -o Source/amd_l_defaults.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_dump.c -o Source/amd_dump.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_dump.c -o Source/amd_l_dump.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_info.c -o Source/amd_info.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_info.c -o Source/amd_l_info.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_order.c -o Source/amd_order.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_order.c -o Source/amd_l_order.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_post_tree.c -o Source/amd_post_tree.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_post_tree.c -o Source/amd_l_post_tree.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_postorder.c -o Source/amd_postorder.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_postorder.c -o Source/amd_l_postorder.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_preprocess.c -o Source/amd_preprocess.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_preprocess.c -o Source/amd_l_preprocess.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_valid.c -o Source/amd_valid.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_l_valid.c -o Source/amd_l_valid.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/amd_version.c -o Source/amd_version.o
rm -f AMD.a
ar -cr AMD.a Source/amd_1.o Source/amd_l1.o Source/amd_2.o Source/amd_l2.o Source/amd_aat.o Source/amd_l_aat.o Source/amd_control.o Source/amd_l_control.o Source/amd_defaults.o Source/amd_l_defaults.o Source/amd_dump.o Source/amd_l_dump.o Source/amd_info.o Source/amd_l_info.o Source/amd_order.o Source/amd_l_order.o Source/amd_post_tree.o Source/amd_l_post_tree.o Source/amd_postorder.o Source/amd_l_postorder.o Source/amd_preprocess.o Source/amd_l_preprocess.o Source/amd_valid.o Source/amd_l_valid.o Source/amd_version.o
ranlib AMD.a
make[4]: Leaving directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/AMD'
cd SuiteSparse/CXSparse && make clean all CC="gcc" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.4.2/include\" -I\"/builddir/build/BUILD/R-4.4.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib"
make[4]: Entering directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/CXSparse'
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_add.c -o Source/cs_add.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_add.c -o Source/cs_dl_add.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_add.c -o Source/cs_ci_add.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_add.c -o Source/cs_cl_add.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_amd.c -o Source/cs_amd.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_amd.c -o Source/cs_dl_amd.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_amd.c -o Source/cs_ci_amd.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_amd.c -o Source/cs_cl_amd.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_chol.c -o Source/cs_chol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_chol.c -o Source/cs_dl_chol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_chol.c -o Source/cs_ci_chol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_chol.c -o Source/cs_cl_chol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cholsol.c -o Source/cs_cholsol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_cholsol.c -o Source/cs_dl_cholsol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_cholsol.c -o Source/cs_ci_cholsol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_cholsol.c -o Source/cs_cl_cholsol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_compress.c -o Source/cs_compress.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_compress.c -o Source/cs_dl_compress.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_compress.c -o Source/cs_ci_compress.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_compress.c -o Source/cs_cl_compress.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_convert.c -o Source/cs_convert.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_counts.c -o Source/cs_counts.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_counts.c -o Source/cs_dl_counts.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_counts.c -o Source/cs_ci_counts.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_counts.c -o Source/cs_cl_counts.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cumsum.c -o Source/cs_cumsum.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_cumsum.c -o Source/cs_dl_cumsum.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_cumsum.c -o Source/cs_ci_cumsum.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_cumsum.c -o Source/cs_cl_cumsum.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dfs.c -o Source/cs_dfs.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_dfs.c -o Source/cs_dl_dfs.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_dfs.c -o Source/cs_ci_dfs.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_dfs.c -o Source/cs_cl_dfs.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dmperm.c -o Source/cs_dmperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_dmperm.c -o Source/cs_dl_dmperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_dmperm.c -o Source/cs_ci_dmperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_dmperm.c -o Source/cs_cl_dmperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_droptol.c -o Source/cs_droptol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_droptol.c -o Source/cs_dl_droptol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_droptol.c -o Source/cs_ci_droptol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_droptol.c -o Source/cs_cl_droptol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dropzeros.c -o Source/cs_dropzeros.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_dropzeros.c -o Source/cs_dl_dropzeros.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_dropzeros.c -o Source/cs_ci_dropzeros.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_dropzeros.c -o Source/cs_cl_dropzeros.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dupl.c -o Source/cs_dupl.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_dupl.c -o Source/cs_dl_dupl.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_dupl.c -o Source/cs_ci_dupl.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_dupl.c -o Source/cs_cl_dupl.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_entry.c -o Source/cs_entry.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_entry.c -o Source/cs_dl_entry.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_entry.c -o Source/cs_ci_entry.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_entry.c -o Source/cs_cl_entry.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ereach.c -o Source/cs_ereach.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_ereach.c -o Source/cs_dl_ereach.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_ereach.c -o Source/cs_ci_ereach.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_ereach.c -o Source/cs_cl_ereach.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_etree.c -o Source/cs_etree.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_etree.c -o Source/cs_dl_etree.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_etree.c -o Source/cs_ci_etree.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_etree.c -o Source/cs_cl_etree.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_fkeep.c -o Source/cs_fkeep.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_fkeep.c -o Source/cs_dl_fkeep.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_fkeep.c -o Source/cs_ci_fkeep.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_fkeep.c -o Source/cs_cl_fkeep.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_gaxpy.c -o Source/cs_gaxpy.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_gaxpy.c -o Source/cs_dl_gaxpy.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_gaxpy.c -o Source/cs_ci_gaxpy.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_gaxpy.c -o Source/cs_cl_gaxpy.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_happly.c -o Source/cs_happly.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_happly.c -o Source/cs_dl_happly.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_happly.c -o Source/cs_ci_happly.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_happly.c -o Source/cs_cl_happly.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_house.c -o Source/cs_house.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_house.c -o Source/cs_dl_house.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_house.c -o Source/cs_ci_house.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_house.c -o Source/cs_cl_house.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ipvec.c -o Source/cs_ipvec.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_ipvec.c -o Source/cs_dl_ipvec.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_ipvec.c -o Source/cs_ci_ipvec.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_ipvec.c -o Source/cs_cl_ipvec.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_leaf.c -o Source/cs_leaf.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_leaf.c -o Source/cs_dl_leaf.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_leaf.c -o Source/cs_ci_leaf.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_leaf.c -o Source/cs_cl_leaf.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_load.c -o Source/cs_load.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_load.c -o Source/cs_dl_load.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_load.c -o Source/cs_ci_load.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_load.c -o Source/cs_cl_load.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_lsolve.c -o Source/cs_lsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_lsolve.c -o Source/cs_dl_lsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_lsolve.c -o Source/cs_ci_lsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_lsolve.c -o Source/cs_cl_lsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ltsolve.c -o Source/cs_ltsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_ltsolve.c -o Source/cs_dl_ltsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_ltsolve.c -o Source/cs_ci_ltsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_ltsolve.c -o Source/cs_cl_ltsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_lu.c -o Source/cs_lu.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_lu.c -o Source/cs_dl_lu.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_lu.c -o Source/cs_ci_lu.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_lu.c -o Source/cs_cl_lu.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_lusol.c -o Source/cs_lusol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_lusol.c -o Source/cs_dl_lusol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_lusol.c -o Source/cs_ci_lusol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_lusol.c -o Source/cs_cl_lusol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_malloc.c -o Source/cs_malloc.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_malloc.c -o Source/cs_dl_malloc.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_malloc.c -o Source/cs_ci_malloc.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_malloc.c -o Source/cs_cl_malloc.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_maxtrans.c -o Source/cs_maxtrans.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_maxtrans.c -o Source/cs_dl_maxtrans.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_maxtrans.c -o Source/cs_ci_maxtrans.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_maxtrans.c -o Source/cs_cl_maxtrans.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_multiply.c -o Source/cs_multiply.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_multiply.c -o Source/cs_dl_multiply.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_multiply.c -o Source/cs_ci_multiply.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_multiply.c -o Source/cs_cl_multiply.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_norm.c -o Source/cs_norm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_norm.c -o Source/cs_dl_norm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_norm.c -o Source/cs_ci_norm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_norm.c -o Source/cs_cl_norm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_permute.c -o Source/cs_permute.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_permute.c -o Source/cs_dl_permute.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_permute.c -o Source/cs_ci_permute.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_permute.c -o Source/cs_cl_permute.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_pinv.c -o Source/cs_pinv.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_pinv.c -o Source/cs_dl_pinv.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_pinv.c -o Source/cs_ci_pinv.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_pinv.c -o Source/cs_cl_pinv.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_post.c -o Source/cs_post.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_post.c -o Source/cs_dl_post.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_post.c -o Source/cs_ci_post.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_post.c -o Source/cs_cl_post.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_print.c -o Source/cs_print.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_print.c -o Source/cs_dl_print.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_print.c -o Source/cs_ci_print.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_print.c -o Source/cs_cl_print.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_pvec.c -o Source/cs_pvec.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_pvec.c -o Source/cs_dl_pvec.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_pvec.c -o Source/cs_ci_pvec.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_pvec.c -o Source/cs_cl_pvec.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_qr.c -o Source/cs_qr.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_qr.c -o Source/cs_dl_qr.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_qr.c -o Source/cs_ci_qr.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_qr.c -o Source/cs_cl_qr.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_qrsol.c -o Source/cs_qrsol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_qrsol.c -o Source/cs_dl_qrsol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_qrsol.c -o Source/cs_ci_qrsol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_qrsol.c -o Source/cs_cl_qrsol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_randperm.c -o Source/cs_randperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_randperm.c -o Source/cs_dl_randperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_randperm.c -o Source/cs_ci_randperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_randperm.c -o Source/cs_cl_randperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_reach.c -o Source/cs_reach.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_reach.c -o Source/cs_dl_reach.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_reach.c -o Source/cs_ci_reach.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_reach.c -o Source/cs_cl_reach.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_scatter.c -o Source/cs_scatter.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_scatter.c -o Source/cs_dl_scatter.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_scatter.c -o Source/cs_ci_scatter.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_scatter.c -o Source/cs_cl_scatter.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_scc.c -o Source/cs_scc.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_scc.c -o Source/cs_dl_scc.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_scc.c -o Source/cs_ci_scc.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_scc.c -o Source/cs_cl_scc.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_schol.c -o Source/cs_schol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_schol.c -o Source/cs_dl_schol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_schol.c -o Source/cs_ci_schol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_schol.c -o Source/cs_cl_schol.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_spsolve.c -o Source/cs_spsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_spsolve.c -o Source/cs_dl_spsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_spsolve.c -o Source/cs_ci_spsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_spsolve.c -o Source/cs_cl_spsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_sqr.c -o Source/cs_sqr.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_sqr.c -o Source/cs_dl_sqr.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_sqr.c -o Source/cs_ci_sqr.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_sqr.c -o Source/cs_cl_sqr.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_symperm.c -o Source/cs_symperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_symperm.c -o Source/cs_dl_symperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_symperm.c -o Source/cs_ci_symperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_symperm.c -o Source/cs_cl_symperm.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_tdfs.c -o Source/cs_tdfs.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_tdfs.c -o Source/cs_dl_tdfs.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_tdfs.c -o Source/cs_ci_tdfs.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_tdfs.c -o Source/cs_cl_tdfs.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_transpose.c -o Source/cs_transpose.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_transpose.c -o Source/cs_dl_transpose.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_transpose.c -o Source/cs_ci_transpose.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_transpose.c -o Source/cs_cl_transpose.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_updown.c -o Source/cs_updown.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_updown.c -o Source/cs_dl_updown.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_updown.c -o Source/cs_ci_updown.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_updown.c -o Source/cs_cl_updown.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_usolve.c -o Source/cs_usolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_usolve.c -o Source/cs_dl_usolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_usolve.c -o Source/cs_ci_usolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_usolve.c -o Source/cs_cl_usolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_util.c -o Source/cs_util.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_util.c -o Source/cs_dl_util.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_util.c -o Source/cs_ci_util.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_util.c -o Source/cs_cl_util.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_utsolve.c -o Source/cs_utsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_dl_utsolve.c -o Source/cs_dl_utsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_ci_utsolve.c -o Source/cs_ci_utsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cs_cl_utsolve.c -o Source/cs_cl_utsolve.o
gcc -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c Source/cxsparse_version.c -o Source/cxsparse_version.o
rm -f CXSparse.a
ar -cr CXSparse.a Source/cs_add.o Source/cs_dl_add.o Source/cs_ci_add.o Source/cs_cl_add.o Source/cs_amd.o Source/cs_dl_amd.o Source/cs_ci_amd.o Source/cs_cl_amd.o Source/cs_chol.o Source/cs_dl_chol.o Source/cs_ci_chol.o Source/cs_cl_chol.o Source/cs_cholsol.o Source/cs_dl_cholsol.o Source/cs_ci_cholsol.o Source/cs_cl_cholsol.o Source/cs_compress.o Source/cs_dl_compress.o Source/cs_ci_compress.o Source/cs_cl_compress.o Source/cs_convert.o Source/cs_counts.o Source/cs_dl_counts.o Source/cs_ci_counts.o Source/cs_cl_counts.o Source/cs_cumsum.o Source/cs_dl_cumsum.o Source/cs_ci_cumsum.o Source/cs_cl_cumsum.o Source/cs_dfs.o Source/cs_dl_dfs.o Source/cs_ci_dfs.o Source/cs_cl_dfs.o Source/cs_dmperm.o Source/cs_dl_dmperm.o Source/cs_ci_dmperm.o Source/cs_cl_dmperm.o Source/cs_droptol.o Source/cs_dl_droptol.o Source/cs_ci_droptol.o Source/cs_cl_droptol.o Source/cs_dropzeros.o Source/cs_dl_dropzeros.o Source/cs_ci_dropzeros.o Source/cs_cl_dropzeros.o Source/cs_dupl.o Source/cs_dl_dupl.o Source/cs_ci_dupl.o Source/cs_cl_dupl.o Source/cs_entry.o Source/cs_dl_entry.o Source/cs_ci_entry.o Source/cs_cl_entry.o Source/cs_ereach.o Source/cs_dl_ereach.o Source/cs_ci_ereach.o Source/cs_cl_ereach.o Source/cs_etree.o Source/cs_dl_etree.o Source/cs_ci_etree.o Source/cs_cl_etree.o Source/cs_fkeep.o Source/cs_dl_fkeep.o Source/cs_ci_fkeep.o Source/cs_cl_fkeep.o Source/cs_gaxpy.o Source/cs_dl_gaxpy.o Source/cs_ci_gaxpy.o Source/cs_cl_gaxpy.o Source/cs_happly.o Source/cs_dl_happly.o Source/cs_ci_happly.o Source/cs_cl_happly.o Source/cs_house.o Source/cs_dl_house.o Source/cs_ci_house.o Source/cs_cl_house.o Source/cs_ipvec.o Source/cs_dl_ipvec.o Source/cs_ci_ipvec.o Source/cs_cl_ipvec.o Source/cs_leaf.o Source/cs_dl_leaf.o Source/cs_ci_leaf.o Source/cs_cl_leaf.o Source/cs_load.o Source/cs_dl_load.o Source/cs_ci_load.o Source/cs_cl_load.o Source/cs_lsolve.o Source/cs_dl_lsolve.o Source/cs_ci_lsolve.o Source/cs_cl_lsolve.o Source/cs_ltsolve.o Source/cs_dl_ltsolve.o Source/cs_ci_ltsolve.o Source/cs_cl_ltsolve.o Source/cs_lu.o Source/cs_dl_lu.o Source/cs_ci_lu.o Source/cs_cl_lu.o Source/cs_lusol.o Source/cs_dl_lusol.o Source/cs_ci_lusol.o Source/cs_cl_lusol.o Source/cs_malloc.o Source/cs_dl_malloc.o Source/cs_ci_malloc.o Source/cs_cl_malloc.o Source/cs_maxtrans.o Source/cs_dl_maxtrans.o Source/cs_ci_maxtrans.o Source/cs_cl_maxtrans.o Source/cs_multiply.o Source/cs_dl_multiply.o Source/cs_ci_multiply.o Source/cs_cl_multiply.o Source/cs_norm.o Source/cs_dl_norm.o Source/cs_ci_norm.o Source/cs_cl_norm.o Source/cs_permute.o Source/cs_dl_permute.o Source/cs_ci_permute.o Source/cs_cl_permute.o Source/cs_pinv.o Source/cs_dl_pinv.o Source/cs_ci_pinv.o Source/cs_cl_pinv.o Source/cs_post.o Source/cs_dl_post.o Source/cs_ci_post.o Source/cs_cl_post.o Source/cs_print.o Source/cs_dl_print.o Source/cs_ci_print.o Source/cs_cl_print.o Source/cs_pvec.o Source/cs_dl_pvec.o Source/cs_ci_pvec.o Source/cs_cl_pvec.o Source/cs_qr.o Source/cs_dl_qr.o Source/cs_ci_qr.o Source/cs_cl_qr.o Source/cs_qrsol.o Source/cs_dl_qrsol.o Source/cs_ci_qrsol.o Source/cs_cl_qrsol.o Source/cs_randperm.o Source/cs_dl_randperm.o Source/cs_ci_randperm.o Source/cs_cl_randperm.o Source/cs_reach.o Source/cs_dl_reach.o Source/cs_ci_reach.o Source/cs_cl_reach.o Source/cs_scatter.o Source/cs_dl_scatter.o Source/cs_ci_scatter.o Source/cs_cl_scatter.o Source/cs_scc.o Source/cs_dl_scc.o Source/cs_ci_scc.o Source/cs_cl_scc.o Source/cs_schol.o Source/cs_dl_schol.o Source/cs_ci_schol.o Source/cs_cl_schol.o Source/cs_spsolve.o Source/cs_dl_spsolve.o Source/cs_ci_spsolve.o Source/cs_cl_spsolve.o Source/cs_sqr.o Source/cs_dl_sqr.o Source/cs_ci_sqr.o Source/cs_cl_sqr.o Source/cs_symperm.o Source/cs_dl_symperm.o Source/cs_ci_symperm.o Source/cs_cl_symperm.o Source/cs_tdfs.o Source/cs_dl_tdfs.o Source/cs_ci_tdfs.o Source/cs_cl_tdfs.o Source/cs_transpose.o Source/cs_dl_transpose.o Source/cs_ci_transpose.o Source/cs_cl_transpose.o Source/cs_updown.o Source/cs_dl_updown.o Source/cs_ci_updown.o Source/cs_cl_updown.o Source/cs_usolve.o Source/cs_dl_usolve.o Source/cs_ci_usolve.o Source/cs_cl_usolve.o Source/cs_util.o Source/cs_dl_util.o Source/cs_ci_util.o Source/cs_cl_util.o Source/cs_utsolve.o Source/cs_dl_utsolve.o Source/cs_ci_utsolve.o Source/cs_cl_utsolve.o Source/cxsparse_version.o
ranlib CXSparse.a
make[4]: Leaving directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/CXSparse'
cd SuiteSparse/SuiteSparse_config && make clean all CC="gcc" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.4.2/include\" -I\"/builddir/build/BUILD/R-4.4.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib"
make[4]: Entering directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/SuiteSparse_config'
gcc -I/usr/local/include -I"/builddir/build/BUILD/R-4.4.2/include" -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -fpic -fvisibility=hidden -c SuiteSparse_config.c -o SuiteSparse_config.o
rm -f SuiteSparse_config.a
ar -cr SuiteSparse_config.a SuiteSparse_config.o
ranlib SuiteSparse_config.a
make[4]: Leaving directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src/SuiteSparse/SuiteSparse_config'
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o Matrix.so Csparse.o attrib.o bind.o cholmod-common.o cholmod-etc.o coerce.o cs-etc.o dense.o determinant.o expm.o factor.o idz.o init.o kappa.o matmult.o objects.o perm.o solve.o sparse.o subassign.o subscript.o utils-R.o utils.o validity.o vector.o SuiteSparse/CHOLMOD/CHOLMOD.a SuiteSparse/CCOLAMD/CCOLAMD.a SuiteSparse/CAMD/CAMD.a SuiteSparse/COLAMD/COLAMD.a SuiteSparse/AMD/AMD.a SuiteSparse/CXSparse/CXSparse.a SuiteSparse/SuiteSparse_config/SuiteSparse_config.a -lflexiblas -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-4.4.2/lib -lR
lto-wrapper: warning: using serial compilation of 31 LTRANS jobs
make[3]: Leaving directory '/tmp/Rtmpzttk25/R.INSTALL44b45c6d87b9/Matrix/src'
installing to /builddir/build/BUILD/R-4.4.2/library/Matrix/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for 'chol2inv' from 'base' in package 'Matrix'
    (from the saved implicit definition)
Creating a generic function for 'chol2inv' from package 'base' in package 'Matrix'
Creating a generic function for 'diag' from package 'base' in package 'Matrix'
Creating a generic function for 'zapsmall' from package 'base' in package 'Matrix'
Creating a generic function for 'drop' from package 'base' in package 'Matrix'
in method for 'coerce' with signature '"matrix.csc","dgCMatrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.csr","dgRMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.coo","dgTMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.csr","dgCMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.coo","dgCMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.csc","CsparseMatrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.csc","RsparseMatrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.csc","TsparseMatrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.csr","CsparseMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.csr","RsparseMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.csr","TsparseMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.coo","CsparseMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.coo","RsparseMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.coo","TsparseMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.csc","sparseMatrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.csr","sparseMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.coo","sparseMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.csc","Matrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.csr","Matrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.coo","Matrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"dgCMatrix","matrix.csc"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"dgRMatrix","matrix.csr"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"dgTMatrix","matrix.coo"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"Matrix","matrix.csc"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"Matrix","matrix.csr"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"Matrix","matrix.coo"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"graphAM","TsparseMatrix"': no definition for class "graphAM"
in method for 'coerce' with signature '"graphNEL","TsparseMatrix"': no definition for class "graphNEL"
in method for 'coerce' with signature '"graph","CsparseMatrix"': no definition for class "graph"
in method for 'coerce' with signature '"graph","RsparseMatrix"': no definition for class "graph"
in method for 'coerce' with signature '"graph","TsparseMatrix"': no definition for class "graph"
in method for 'coerce' with signature '"graph","sparseMatrix"': no definition for class "graph"
in method for 'coerce' with signature '"graph","Matrix"': no definition for class "graph"
in method for 'coerce' with signature '"TsparseMatrix","graphNEL"': no definition for class "graphNEL"
in method for 'coerce' with signature '"Matrix","graphNEL"': no definition for class "graphNEL"
in method for 'coerce' with signature '"Matrix","graph"': no definition for class "graph"
Creating a generic function for 'colSums' from package 'base' in package 'Matrix'
Creating a generic function for 'colMeans' from package 'base' in package 'Matrix'
Creating a generic function for 'rowSums' from package 'base' in package 'Matrix'
Creating a generic function for 'rowMeans' from package 'base' in package 'Matrix'
Creating a generic function for 'diag<-' from package 'base' in package 'Matrix'
Creating a generic function for 'unname' from package 'base' in package 'Matrix'
Creating a generic function for 'norm' from package 'base' in package 'Matrix'
Creating a generic function for 'rcond' from 'base' in package 'Matrix'
    (from the saved implicit definition)
Creating a generic function for 'rcond' from package 'base' in package 'Matrix'
Creating a generic function for 'cov2cor' from package 'stats' in package 'Matrix'
Creating a generic function for 'qr.Q' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.R' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.X' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.coef' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.fitted' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.resid' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.qty' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.qy' from package 'base' in package 'Matrix'
Creating a generic function for 'toeplitz' from 'stats' in package 'Matrix'
    (from the saved implicit definition)
Creating a generic function for 'toeplitz' from package 'stats' in package 'Matrix'
Creating a generic function for 'which' from package 'base' in package 'Matrix'
** help
*** installing help indices
  converting help for package 'Matrix'
    finding HTML links ... done
    BunchKaufman-class                      html  
    BunchKaufman-methods                    html  
    CAex                                    html  
    CHMfactor-class                         html  
    Cholesky-class                          html  
    Cholesky-methods                        html  
    CsparseMatrix-class                     html  
    Diagonal                                html  
    Hilbert                                 html  
    KNex                                    html  
    KhatriRao                               html  
    Matrix-class                            html  
    Matrix-defunct                          html  
    Matrix-deprecated                       html  
    Matrix-notyet                           html  
    Matrix                                  html  
    MatrixClass                             html  
    MatrixFactorization-class               html  
    RsparseMatrix-class                     html  
    Schur-class                             html  
    Schur-methods                           html  
    TsparseMatrix-class                     html  
    USCounties                              html  
    abIndex-class                           html  
    abIseq                                  html  
    all.equal-methods                       html  
    asUniqueT                               html  
    band-methods                            html  
    bandSparse                              html  
    bdiag                                   html  
    boolmatmult-methods                     html  
    cbind2-methods                          html  
    chol-methods                            html  
    chol2inv-methods                        html  
    coerce-methods-SparseM                  html  
    coerce-methods-graph                    html  
    colSums-methods                         html  
    condest                                 html  
    dMatrix-class                           html  
    ddenseMatrix-class                      html  
    ddiMatrix-class                         html  
    denseLU-class                           html  
    denseMatrix-class                       html  
    dgCMatrix-class                         html  
    dgRMatrix-class                         html  
    dgTMatrix-class                         html  
    dgeMatrix-class                         html  
    diagU2N                                 html  
    diagonalMatrix-class                    html  
    dimScale                                html  
    dmperm                                  html  
    dpoMatrix-class                         html  
    drop0                                   html  
    dsCMatrix-class                         html  
    dsRMatrix-class                         html  
    dsparseMatrix-class                     html  
    dsyMatrix-class                         html  
    dtCMatrix-class                         html  
    dtRMatrix-class-sparse                  html  
    dtpMatrix-class                         html  
    dtrMatrix-class-dense                   html  
    expand-methods                          html  
    expm-methods                            html  
    externalFormats                         html  
    facmul-methods                          html  
    fastMisc                                html  
    forceSymmetric-methods                  html  
    formatSparseM                           html  
    generalMatrix-class                     html  
    image-methods                           html  
    indMatrix-class                         html  
    index-class                             html  
    invertPerm                              html  
    is.na-methods                           html  
    is.null.DN                              html  
    isSymmetric-methods                     html  
    isTriangular-methods                    html  
    kronecker-methods                       html  
    ldenseMatrix-class                      html  
    ldiMatrix-class                         html  
    lgeMatrix-class                         html  
    lsparseMatrix-class                     html  
    lsyMatrix-class                         html  
    ltrMatrix-class                         html  
    lu-methods                              html  
    mat2triplet                             html  
    matmult-methods                         html  
    nMatrix-class                           html  
    ndenseMatrix-class                      html  
    nearPD                                  html  
    ngeMatrix-class                         html  
    nnzero-methods                          html  
    norm-methods                            html  
    nsparseMatrix-class                     html  
    nsyMatrix-class                         html  
    ntrMatrix-class                         html  
    pMatrix-class                           html  
    pack-methods                            html  
    packedMatrix-class                      html  
    printSpMatrix                           html  
    qr-methods                              html  
    rankMatrix                              html  
    rcond-methods                           html  
    rep2abI                                 html  
    rleDiff-class                           html  
    rsparsematrix                           html  
    solve-methods                           html  
    spMatrix                                html  
    sparse.model.matrix                     html  
    sparseLU-class                          html  
    sparseMatrix-class                      html  
    sparseMatrix                            html  
    sparseQR-class                          html  
    sparseVector-class                      html  
    sparseVector                            html  
    subassign-methods                       html  
    subscript-methods                       html  
    symmetricMatrix-class                   html  
    symmpart-methods                        html  
    triangularMatrix-class                  html  
    unpackedMatrix-class                    html  
    updown-methods                          html  
    wrld_1deg                               html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Matrix)
Making 'packages.html' ... done
begin installing recommended package nlme
* installing *source* package 'nlme' ...
** package 'nlme' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
using Fortran compiler: 'GNU Fortran (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpGl6h8T/R.INSTALL4b2f2acc340a/nlme/src'
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c chol.f -o chol.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c corStruct.c -o corStruct.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gnls.c -o gnls.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c matrix.c -o matrix.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c nlOptimizer.c -o nlOptimizer.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c nlme.c -o nlme.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c nlmefit.c -o nlmefit.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pdMat.c -o pdMat.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fvisibility=hidden -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pythag.c -o pythag.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c rs.f -o rs.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o nlme.so chol.o corStruct.o gnls.o init.o matrix.o nlOptimizer.o nlme.o nlmefit.o pdMat.o pythag.o rs.o -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpGl6h8T/R.INSTALL4b2f2acc340a/nlme/src'
installing to /builddir/build/BUILD/R-4.4.2/library/nlme/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'nlme'
    finding HTML links ... done
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    fitted.glsStruct                        html  
    fitted.gnlsStruct                       html  
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    fitted.lme                              html  
    fitted.lmeStruct                        html  
    fitted.nlmeStruct                       html  
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    formula.pdBlocked                       html  
    formula.pdMat                           html  
    formula.reStruct                        html  
    gapply                                  html  
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    getCovariate.corStruct                  html  
    getCovariate.data.frame                 html  
    getCovariate.varFunc                    html  
    getCovariateFormula                     html  
    getData                                 html  
    getData.gls                             html  
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    getGroups.corStruct                     html  
    getGroups.data.frame                    html  
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    getResponseFormula                      html  
    getVarCov                               html  
    gls-internal                            html  
    gls                                     html  
    glsControl                              html  
    glsObject                               html  
    glsStruct                               html  
    gnls                                    html  
    gnlsControl                             html  
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    intervals                               html  
    intervals.gls                           html  
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    intervals.lme                           html  
    isBalanced                              html  
    isInitialized                           html  
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    lmList.groupedData                      html  
    lme                                     html  
    lme.groupedData                         html  
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    lmeObject                               html  
    lmeStruct                               html  
    logDet                                  html  
    logDet.corStruct                        html  
    logDet.pdMat                            html  
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    logLik.corStruct                        html  
    logLik.glsStruct                        html  
    logLik.gnls                             html  
    logLik.gnlsStruct                       html  
    logLik.lmList                           html  
    logLik.lme                              html  
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    logLik.reStruct                         html  
    logLik.varFunc                          html  
    model.matrix.reStruct                   html  
    needUpdate                              html  
    needUpdate.modelStruct                  html  
    nlme-deprecated                         html  
    nlme                                    html  
    nlme.nlsList                            html  
    nlmeControl                             html  
    nlmeObject                              html  
    nlmeStruct                              html  
    nlsList                                 html  
    nlsList.selfStart                       html  
    pairs.compareFits                       html  
    pairs.lmList                            html  
    pairs.lme                               html  
    pdBlocked                               html  
    pdClasses                               html  
    pdCompSymm                              html  
    pdConstruct                             html  
    pdConstruct.pdBlocked                   html  
    pdDiag                                  html  
    pdFactor                                html  
    pdFactor.reStruct                       html  
    pdIdent                                 html  
    pdLogChol                               html  
    pdMat                                   html  
    pdMatrix                                html  
    pdMatrix.reStruct                       html  
    pdNatural                               html  
    pdSymm                                  html  
    phenoModel                              html  
    plot.ACF                                html  
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    plot.augPred                            html  
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    plot.gls                                html  
    plot.intervals.lmList                   html  
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    plot.lme                                html  
    plot.nffGroupedData                     html  
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    pooledSD                                html  
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    print.summary.pdMat                     html  
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    qqnorm.gls                              html  
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    reStruct                                html  
    recalc                                  html  
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    varFunc                                 html  
    varIdent                                html  
    varPower                                html  
    varWeights                              html  
    varWeights.glsStruct                    html  
    varWeights.lmeStruct                    html  
** building package indices
** testing if installed package can be loaded
* DONE (nlme)
Making 'packages.html' ... done
begin installing recommended package survival
* installing *source* package 'survival' ...
** package 'survival' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/Rtmp5v904A/R.INSTALL4b821f947ed5/survival/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agexact.c -o agexact.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agfit4.c -o agfit4.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agfit5.c -o agfit5.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agmart.c -o agmart.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agmart3.c -o agmart3.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agscore2.c -o agscore2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agscore3.c -o agscore3.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agsurv4.c -o agsurv4.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c agsurv5.c -o agsurv5.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cdecomp.c -o cdecomp.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c chinv2.c -o chinv2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c chinv3.c -o chinv3.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cholesky2.c -o cholesky2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cholesky3.c -o cholesky3.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cholesky5.c -o cholesky5.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c chsolve2.c -o chsolve2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c chsolve3.c -o chsolve3.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c chsolve5.c -o chsolve5.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c collapse.c -o collapse.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c concordance1.c -o concordance1.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c concordance3.c -o concordance3.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c concordance5.c -o concordance5.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c cox_Rcallback.c -o cox_Rcallback.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxcount1.c -o coxcount1.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxdetail.c -o coxdetail.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxexact.c -o coxexact.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxfit5.c -o coxfit5.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxfit6.c -o coxfit6.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxmart.c -o coxmart.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxmart2.c -o coxmart2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxph_wtest.c -o coxph_wtest.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxsafe.c -o coxsafe.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxscho.c -o coxscho.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxscore2.c -o coxscore2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxsurv1.c -o coxsurv1.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxsurv2.c -o coxsurv2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxsurv3.c -o coxsurv3.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxsurv4.c -o coxsurv4.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dmatrix.c -o dmatrix.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c doloop.c -o doloop.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fastkm.c -o fastkm.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c finegray.c -o finegray.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gchol.c -o gchol.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c multicheck.c -o multicheck.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c norisk.c -o norisk.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pyears1.c -o pyears1.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pyears2.c -o pyears2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pyears3b.c -o pyears3b.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pystep.c -o pystep.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c residcsum.c -o residcsum.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survConcordance.c -o survConcordance.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survdiff2.c -o survdiff2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survfit4.c -o survfit4.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survfitaj.c -o survfitaj.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survfitkm.c -o survfitkm.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survfitresid.c -o survfitresid.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survpenal.c -o survpenal.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survreg6.c -o survreg6.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survreg7.c -o survreg7.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survregc1.c -o survregc1.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survregc2.c -o survregc2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c survsplit.c -o survsplit.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c tmerge.c -o tmerge.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c twoclust.c -o twoclust.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c zph1.c -o zph1.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c zph2.c -o zph2.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o survival.so agexact.o agfit4.o agfit5.o agmart.o agmart3.o agscore2.o agscore3.o agsurv4.o agsurv5.o cdecomp.o chinv2.o chinv3.o cholesky2.o cholesky3.o cholesky5.o chsolve2.o chsolve3.o chsolve5.o collapse.o concordance1.o concordance3.o concordance5.o cox_Rcallback.o coxcount1.o coxdetail.o coxexact.o coxfit5.o coxfit6.o coxmart.o coxmart2.o coxph_wtest.o coxsafe.o coxscho.o coxscore2.o coxsurv1.o coxsurv2.o coxsurv3.o coxsurv4.o dmatrix.o doloop.o fastkm.o finegray.o gchol.o init.o multicheck.o norisk.o pyears1.o pyears2.o pyears3b.o pystep.o residcsum.o survConcordance.o survdiff2.o survfit4.o survfitaj.o survfitkm.o survfitresid.o survpenal.o survreg6.o survreg7.o survregc1.o survregc2.o survsplit.o tmerge.o twoclust.o zph1.o zph2.o -L/builddir/build/BUILD/R-4.4.2/lib -lR
lto-wrapper: warning: using serial compilation of 3 LTRANS jobs
make[3]: Leaving directory '/tmp/Rtmp5v904A/R.INSTALL4b821f947ed5/survival/src'
installing to /builddir/build/BUILD/R-4.4.2/library/survival/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'survival'
    finding HTML links ... done
    Surv                                    html  
    Surv2                                   html  
    Surv2data                               html  
    Survmethods                             html  
    aareg                                   html  
    aeqSurv                                 html  
    aggregate.survfit                       html  
    agreg.fit                               html  
    aml                                     html  
    anova.coxph                             html  
    attrassign                              html  
    basehaz                                 html  
    bladder                                 html  
    blogit                                  html  
    brier                                   html  
    cch                                     html  
    cgd                                     html  
    cgd0                                    html  
    cipoisson                               html  
    clogit                                  html  
    cluster                                 html  
    colon                                   html  
    concordance                             html  
    concordancefit                          html  
    cox.zph                                 html  
    coxph                                   html  
    coxph.control                           html  
    coxph.detail                            html  
    coxph.object                            html  
    coxph.wtest                             html  
    coxphms.object                          html  
    coxsurv.fit                             html  
    diabetic                                html  
    dsurvreg                                html  
    finegray                                html  
    flchain                                 html  
    frailty                                 html  
    gbsg                                    html  
    heart                                   html  
    hoel                                    html  
    is.ratetable                            html  
    kidney                                  html  
    levels.Surv                             html  
    lines.survfit                           html  
    logLik.coxph                            html  
    logan                                   html  
    lung                                    html  
    mgus                                    html  
    mgus2                                   html  
    model.frame.coxph                       html  
    model.matrix.coxph                      html  
    myeloid                                 html  
    myeloma                                 html  
    nafld                                   html  
    neardate                                html  
    nsk                                     html  
    nwtco                                   html  
    ovarian                                 html  
    pbc                                     html  
    pbcseq                                  html  
    plot.aareg                              html  
    plot.cox.zph                            html  
    plot.survfit                            html  
    predict.coxph                           html  
    predict.survreg                         html  
    print.aareg                             html  
    print.summary.coxph                     html  
    print.summary.survexp                   html  
    print.summary.survfit                   html  
    print.survfit                           html  
    pseudo                                  html  
    pspline                                 html  
    pyears                                  html  
    quantile.survfit                        html  
    ratetable                               html  
    ratetableDate                           html  
    rats                                    html  
    rats2                                   html  
    reliability                             html  
    residuals.coxph                         html  
    residuals.survfit                       html  
    residuals.survreg                       html  
    retinopathy                             html  
    rhDNase                                 html  
    ridge                                   html  
    rotterdam                               html  
    royston                                 html  
    rttright                                html  
    solder                                  html  
    stanford2                               html  
    statefig                                html  
    strata                                  html  
    summary.aareg                           html  
    summary.coxph                           html  
    summary.pyears                          html  
    summary.survexp                         html  
    summary.survfit                         html  
    survSplit                               html  
    survcheck                               html  
    survcondense                            html  
    survdiff                                html  
    survexp                                 html  
    survexp.fit                             html  
    survexp.object                          html  
    survexp.us                              html  
    survfit                                 html  
    survfit.coxph                           html  
    survfit.formula                         html  
    survfit.matrix                          html  
    survfit.object                          html  
    survfit0                                html  
    survfitcoxph.fit                        html  
    survival-deprecated                     html  
    survival-internal                       html  
    survobrien                              html  
    survreg                                 html  
    survreg.control                         html  
    survreg.distributions                   html  
    survreg.object                          html  
    survregDtest                            html  
    tcut                                    html  
    tmerge                                  html  
    tobin                                   html  
    transplant                              html  
    udca                                    html  
    untangle.specials                       html  
    uspop2                                  html  
    vcov.coxph                              html  
    veteran                                 html  
    xtfrm.Surv                              html  
    yates                                   html  
    yates_setup                             html  
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (survival)
Making 'packages.html' ... done
begin installing recommended package boot
* installing *source* package 'boot' ...
** package 'boot' successfully unpacked and MD5 sums checked
** using non-staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'boot'
    finding HTML links ... done
    EEF.profile                             html  
    Imp.Estimates                           html  
    abc.ci                                  html  
    acme                                    html  
    aids                                    html  
    aircondit                               html  
    amis                                    html  
    aml                                     html  
    beaver                                  html  
    bigcity                                 html  
    boot-practicals                         html  
    boot                                    html  
    boot.array                              html  
    boot.ci                                 html  
    brambles                                html  
    breslow                                 html  
    calcium                                 html  
    cane                                    html  
    capability                              html  
    catsM                                   html  
    cav                                     html  
    cd4                                     html  
    cd4.nested                              html  
    censboot                                html  
    channing                                html  
    claridge                                html  
    cloth                                   html  
    co.transfer                             html  
    coal                                    html  
    control                                 html  
    corr                                    html  
    cum3                                    html  
    cv.glm                                  html  
    darwin                                  html  
    dogs                                    html  
    downs.bc                                html  
    ducks                                   html  
    empinf                                  html  
    envelope                                html  
    exp.tilt                                html  
    fir                                     html  
    freq.array                              html  
    frets                                   html  
    glm.diag                                html  
    glm.diag.plots                          html  
    gravity                                 html  
    hirose                                  html  
    imp.weights                             html  
    inv.logit                               html  
    islay                                   html  
    jack.after.boot                         html  
    k3.linear                               html  
    linear.approx                           html  
    lines.saddle.distn                      html  
    logit                                   html  
    manaus                                  html  
    melanoma                                html  
    motor                                   html  
    neuro                                   html  
    nitrofen                                html  
    nodal                                   html  
    norm.ci                                 html  
    nuclear                                 html  
    paulsen                                 html  
    plot.boot                               html  
    poisons                                 html  
    polar                                   html  
    print.boot                              html  
    print.bootci                            html  
    print.saddle.distn                      html  
    print.simplex                           html  
    remission                               html  
    saddle                                  html  
    saddle.distn                            html  
    saddle.distn.object                     html  
    salinity                                html  
    simplex                                 html  
    simplex.object                          html  
    smooth.f                                html  
    sunspot                                 html  
    survival                                html  
    tau                                     html  
    tilt.boot                               html  
    tsboot                                  html  
    tuna                                    html  
    urine                                   html  
    var.linear                              html  
    wool                                    html  
** building package indices
** testing if installed package can be loaded
* DONE (boot)
Making 'packages.html' ... done
begin installing recommended package cluster
* installing *source* package 'cluster' ...
** package 'cluster' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
using Fortran compiler: 'GNU Fortran (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpnXnWXt/R.INSTALL4ca3bb63118/cluster/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c clara.c -o clara.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c daisy.f -o daisy.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dysta.f -o dysta.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fanny.c -o fanny.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mona.c -o mona.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pam.c -o pam.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sildist.c -o sildist.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c spannel.c -o spannel.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c twins.c -o twins.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o cluster.so clara.o daisy.o dysta.o fanny.o init.o mona.o pam.o sildist.o spannel.o twins.o -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpnXnWXt/R.INSTALL4ca3bb63118/cluster/src'
installing to /builddir/build/BUILD/R-4.4.2/library/cluster/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'cluster'
    finding HTML links ... done
    agnes                                   html  
    agnes.object                            html  
    agriculture                             html  
    animals                                 html  
    bannerplot                              html  
    chorSub                                 html  
    clara                                   html  
    clara.object                            html  
    clusGap                                 html  
    clusplot.default                        html  
    clusplot.partition                      html  
    cluster-internal                        html  
    coef.hclust                             html  
    daisy                                   html  
    diana                                   html  
    dissimilarity.object                    html  
    ellipsoidhull                           html  
    fanny                                   html  
    fanny.object                            html  
    flower                                  html  
    lower.to.upper.tri.inds                 html  
    medoids                                 html  
    mona                                    html  
    mona.object                             html  
    pam                                     html  
    pam.object                              html  
    partition.object                        html  
    plantTraits                             html  
    plot.agnes                              html  
    plot.diana                              html  
    plot.mona                               html  
    plot.partition                          html  
    pltree                                  html  
    pluton                                  html  
    predict.ellipsoid                       html  
    print.agnes                             html  
    print.clara                             html  
    print.diana                             html  
    print.dissimilarity                     html  
    print.fanny                             html  
    print.mona                              html  
    print.pam                               html  
    ruspini                                 html  
    silhouette                              html  
    sizeDiss                                html  
    summary.agnes                           html  
    summary.clara                           html  
    summary.diana                           html  
    summary.mona                            html  
    summary.pam                             html  
    twins.object                            html  
    volume.ellipsoid                        html  
    votes.repub                             html  
    xclara                                  html  
** building package indices
** testing if installed package can be loaded
* DONE (cluster)
Making 'packages.html' ... done
begin installing recommended package codetools
* installing *source* package 'codetools' ...
** package 'codetools' successfully unpacked and MD5 sums checked
** using non-staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'codetools'
    finding HTML links ... done
    checkUsage                              html  
    codetools                               html  
    findGlobals                             html  
    showTree                                html  
** building package indices
** testing if installed package can be loaded
* DONE (codetools)
Making 'packages.html' ... done
begin installing recommended package foreign
* installing *source* package 'foreign' ...
** package 'foreign' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpJBzEc8/R.INSTALL4d144814cc81/foreign/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c R_systat.c -o R_systat.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Rdbfread.c -o Rdbfread.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c Rdbfwrite.c -o Rdbfwrite.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c SASxport.c -o SASxport.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c avl.c -o avl.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c dbfopen.c -o dbfopen.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c file-handle.c -o file-handle.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c format.c -o format.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c minitab.c -o minitab.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pfm-read.c -o pfm-read.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sfm-read.c -o sfm-read.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c spss.c -o spss.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c stataread.c -o stataread.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o foreign.so R_systat.o Rdbfread.o Rdbfwrite.o SASxport.o avl.o dbfopen.o file-handle.o format.o init.o minitab.o pfm-read.o sfm-read.o spss.o stataread.o -L/builddir/build/BUILD/R-4.4.2/lib -lR
lto-wrapper: warning: using serial compilation of 2 LTRANS jobs
make[3]: Leaving directory '/tmp/RtmpJBzEc8/R.INSTALL4d144814cc81/foreign/src'
installing to /builddir/build/BUILD/R-4.4.2/library/foreign/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'foreign'
    finding HTML links ... done
    lookup.xport                            html  
    read.S                                  html  
    read.arff                               html  
    read.dbf                                html  
    read.dta                                html  
    read.epiinfo                            html  
    read.mtp                                html  
    read.octave                             html  
    read.spss                               html  
    read.ssd                                html  
    read.systat                             html  
    read.xport                              html  
    write.arff                              html  
    write.dbf                               html  
    write.dta                               html  
    write.foreign                           html  
** building package indices
** testing if installed package can be loaded
* DONE (foreign)
Making 'packages.html' ... done
begin installing recommended package KernSmooth
* installing *source* package 'KernSmooth' ...
** package 'KernSmooth' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
using Fortran compiler: 'GNU Fortran (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpxOa68P/R.INSTALL4d724bb3eb50/KernSmooth/src'
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c blkest.f -o blkest.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c cp.f -o cp.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dgedi.f -o dgedi.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dgefa.f -o dgefa.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c dgesl.f -o dgesl.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c linbin.f -o linbin.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c linbin2D.f -o linbin2D.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c locpoly.f -o locpoly.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c rlbin.f -o rlbin.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c sdiag.f -o sdiag.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules  -c sstdiag.f -o sstdiag.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o KernSmooth.so blkest.o cp.o dgedi.o dgefa.o dgesl.o init.o linbin.o linbin2D.o locpoly.o rlbin.o sdiag.o sstdiag.o -lflexiblas -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpxOa68P/R.INSTALL4d724bb3eb50/KernSmooth/src'
installing to /builddir/build/BUILD/R-4.4.2/library/KernSmooth/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'KernSmooth'
    finding HTML links ... done
    bkde                                    html  
    bkde2D                                  html  
    bkfe                                    html  
    dpih                                    html  
    dpik                                    html  
    dpill                                   html  
    locpoly                                 html  
** building package indices
** testing if installed package can be loaded
* DONE (KernSmooth)
Making 'packages.html' ... done
begin installing recommended package rpart
* installing *source* package 'rpart' ...
** package 'rpart' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpnMobeY/R.INSTALL4dc855be8862/rpart/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c anova.c -o anova.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c anovapred.c -o anovapred.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c branch.c -o branch.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c bsplit.c -o bsplit.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c choose_surg.c -o choose_surg.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c fix_cp.c -o fix_cp.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c free_tree.c -o free_tree.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gini.c -o gini.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c graycode.c -o graycode.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c insert_split.c -o insert_split.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c make_cp_list.c -o make_cp_list.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c make_cp_table.c -o make_cp_table.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mysort.c -o mysort.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c nodesplit.c -o nodesplit.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c partition.c -o partition.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c poisson.c -o poisson.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pred_rpart.c -o pred_rpart.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c print_tree.c -o print_tree.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rpart.c -o rpart.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rpart_callback.c -o rpart_callback.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rpartexp.c -o rpartexp.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rpartexp2.c -o rpartexp2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rpcountup.c -o rpcountup.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rpmatrix.c -o rpmatrix.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rundown.c -o rundown.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c rundown2.c -o rundown2.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c surrogate.c -o surrogate.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c usersplit.c -o usersplit.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c xpred.c -o xpred.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c xval.c -o xval.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o rpart.so anova.o anovapred.o branch.o bsplit.o choose_surg.o fix_cp.o free_tree.o gini.o graycode.o init.o insert_split.o make_cp_list.o make_cp_table.o mysort.o nodesplit.o partition.o poisson.o pred_rpart.o print_tree.o rpart.o rpart_callback.o rpartexp.o rpartexp2.o rpcountup.o rpmatrix.o rundown.o rundown2.o surrogate.o usersplit.o xpred.o xval.o -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpnMobeY/R.INSTALL4dc855be8862/rpart/src'
installing to /builddir/build/BUILD/R-4.4.2/library/rpart/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'rpart'
    finding HTML links ... done
    car.test.frame                          html  
    car90                                   html  
    cu.summary                              html  
    kyphosis                                html  
    labels.rpart                            html  
    meanvar.rpart                           html  
    na.rpart                                html  
    path.rpart                              html  
    plot.rpart                              html  
    plotcp                                  html  
    post.rpart                              html  
    predict.rpart                           html  
    print.rpart                             html  
    printcp                                 html  
    prune.rpart                             html  
    residuals.rpart                         html  
    rpart-internal                          html  
    rpart                                   html  
    rpart.control                           html  
    rpart.exp                               html  
    rpart.object                            html  
    rsq.rpart                               html  
    snip.rpart                              html  
    solder.balance                          html  
    stagec                                  html  
    summary.rpart                           html  
    text.rpart                              html  
    xpred.rpart                             html  
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (rpart)
Making 'packages.html' ... done
begin installing recommended package class
* installing *source* package 'class' ...
** package 'class' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/Rtmp1J1UTJ/R.INSTALL4e5652009d12/class/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c class.c -o class.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o class.so class.o -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/Rtmp1J1UTJ/R.INSTALL4e5652009d12/class/src'
installing to /builddir/build/BUILD/R-4.4.2/library/class/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'class'
    finding HTML links ... done
    SOM                                     html  
    batchSOM                                html  
    condense                                html  
    knn                                     html  
    knn.cv                                  html  
    knn1                                    html  
    lvq1                                    html  
    lvq2                                    html  
    lvq3                                    html  
    lvqinit                                 html  
    lvqtest                                 html  
    multiedit                               html  
    olvq1                                   html  
    reduce.nn                               html  
    somgrid                                 html  
** building package indices
** testing if installed package can be loaded
* DONE (class)
Making 'packages.html' ... done
begin installing recommended package nnet
* installing *source* package 'nnet' ...
** package 'nnet' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpjVCwLE/R.INSTALL4e8a68ffc2af/nnet/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c nnet.c -o nnet.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o nnet.so nnet.o -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpjVCwLE/R.INSTALL4e8a68ffc2af/nnet/src'
installing to /builddir/build/BUILD/R-4.4.2/library/nnet/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'nnet'
    finding HTML links ... done
    class.ind                               html  
    multinom                                html  
    nnet.Hess                               html  
    nnet                                    html  
    predict.nnet                            html  
    which.is.max                            html  
** building package indices
** testing if installed package can be loaded
* DONE (nnet)
Making 'packages.html' ... done
begin installing recommended package spatial
* installing *source* package 'spatial' ...
** package 'spatial' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpLq5q3W/R.INSTALL4ebe6f278795/spatial/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c krc.c -o krc.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c pps.c -o pps.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o spatial.so init.o krc.o pps.o -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpLq5q3W/R.INSTALL4ebe6f278795/spatial/src'
installing to /builddir/build/BUILD/R-4.4.2/library/spatial/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'spatial'
    finding HTML links ... done
    Kaver                                   html  
    Kenvl                                   html  
    Kfn                                     html  
    Psim                                    html  
    SSI                                     html  
    Strauss                                 html  
    anova.trls                              html  
    correlogram                             html  
    expcov                                  html  
    ppgetregion                             html  
    ppinit                                  html  
    pplik                                   html  
    ppregion                                html  
    predict.trls                            html  
    prmat                                   html  
    semat                                   html  
    surf.gls                                html  
    surf.ls                                 html  
    trls.influence                          html  
    trmat                                   html  
    variogram                               html  
** building package indices
** testing if installed package can be loaded
* DONE (spatial)
Making 'packages.html' ... done
begin installing recommended package mgcv
* installing *source* package 'mgcv' ...
** package 'mgcv' successfully unpacked and MD5 sums checked
** using non-staged installation
** libs
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[3]: Entering directory '/tmp/RtmpZ3MVyG/R.INSTALL4ef83b16f96f/mgcv/src'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c coxph.c -o coxph.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c davies.c -o davies.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c discrete.c -o discrete.o
discrete.c: In function 'CXWyd':
discrete.c:700:62: warning: unused variable 'nrs' [-Wunused-variable]
  700 |   int n,*k,*ks,*m,*p,*ts,*dt,*qc,*nthreads,*cs,*rs,nx,nt,ncs,nrs,*ar_stop,*ar_row,*cy;
      |                                                              ^~~
discrete.c:700:49: warning: unused variable 'rs' [-Wunused-variable]
  700 |   int n,*k,*ks,*m,*p,*ts,*dt,*qc,*nthreads,*cs,*rs,nx,nt,ncs,nrs,*ar_stop,*ar_row,*cy;
      |                                                 ^~
discrete.c:700:35: warning: unused variable 'nthreads' [-Wunused-variable]
  700 |   int n,*k,*ks,*m,*p,*ts,*dt,*qc,*nthreads,*cs,*rs,nx,nt,ncs,nrs,*ar_stop,*ar_row,*cy;
      |                                   ^~~~~~~~
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c gdi.c -o gdi.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c magic.c -o magic.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mat.c -o mat.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c matrix.c -o matrix.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mgcv.c -o mgcv.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c misc.c -o misc.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c mvn.c -o mvn.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c ncv.c -o ncv.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c qp.c -o qp.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c soap.c -o soap.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sparse-smooth.c -o sparse-smooth.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c sparse.c -o sparse.o
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG   -I/usr/local/include   -fopenmp -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c tprs.c -o tprs.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o mgcv.so coxph.o davies.o discrete.o gdi.o init.o magic.o mat.o matrix.o mgcv.o misc.o mvn.o ncv.o qp.o soap.o sparse-smooth.o sparse.o tprs.o -lflexiblas -lgfortran -lm -lquadmath -fopenmp -L/builddir/build/BUILD/R-4.4.2/lib -lR
lto-wrapper: warning: using serial compilation of 6 LTRANS jobs
make[3]: Leaving directory '/tmp/RtmpZ3MVyG/R.INSTALL4ef83b16f96f/mgcv/src'
installing to /builddir/build/BUILD/R-4.4.2/library/mgcv/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'mgcv'
    finding HTML links ... done
    Beta                                    html  
    FFdes                                   html  
    NCV                                     html  
    Predict.matrix                          html  
    Predict.matrix.cr.smooth                html  
    Predict.matrix.soap.film                html  
    Rrank                                   html  
    Sl.initial.repara                       html  
    Sl.repara                               html  
    Sl.setup                                html  
    Tweedie                                 html  
    XWXd                                    html  
    anova.gam                               html  
    bam                                     html  
    bam.update                              html  
    bandchol                                html  
    blas.thread.test                        html  
    bug.reports.mgcv                        html  
    cSplineDes                              html  
    chol.down                               html  
    choose.k                                html  
    cnorm                                   html  
    columb                                  html  
    concurvity                              html  
    coxph                                   html  
    coxpht                                  html  
    dDeta                                   html  
    dpnorm                                  html  
    exclude.too.far                         html  
    extract.lme.cov                         html  
    factor.smooth                           html  
    family.mgcv                             html  
    fix.family.link                         html  
    fixDependence                           html  
    formXtViX                               html  
    formula.gam                             html  
    fs.test                                 html  
    full.score                              html  
    gam                                     html  
    gam.check                               html  
    gam.control                             html  
    gam.convergence                         html  
    gam.fit                                 html  
    gam.fit3                                html  
    gam.fit5.post.proc                      html  
    gam.mh                                  html  
    gam.models                              html  
    gam.outer                               html  
    gam.reparam                             html  
    gam.scale                               html  
    gam.selection                           html  
    gam.side                                html  
    gam.vcomp                               html  
    gam2objective                           html  
    gamObject                               html  
    gamSim                                  html  
    gamlss.etamu                            html  
    gamlss.gH                               html  
    gamm                                    html  
    gammals                                 html  
    gaulss                                  html  
    get.var                                 html  
    gevlss                                  html  
    gfam                                    html  
    ginla                                   html  
    gumbls                                  html  
    identifiability                         html  
    in.out                                  html  
    inSide                                  html  
    influence.gam                           html  
    initial.sp                              html  
    interpret.gam                           html  
    jagam                                   html  
    k.check                                 html  
    ldTweedie                               html  
    ldetS                                   html  
    linear.functional.terms                 html  
    logLik.gam                              html  
    ls.size                                 html  
    magic                                   html  
    magic.post.proc                         html  
    mgcv-FAQ                                html  
    mgcv-package                            html  
    mgcv-parallel                           html  
    mini.roots                              html  
    missing.data                            html  
    model.matrix.gam                        html  
    mono.con                                html  
    mroot                                   html  
    multinom                                html  
    mvn                                     html  
    negbin                                  html  
    new.name                                html  
    notExp                                  html  
    notExp2                                 html  
    null.space.dimension                    html  
    ocat                                    html  
    one.se.rule                             html  
    pcls                                    html  
    pdIdnot                                 html  
    pdTens                                  html  
    pen.edf                                 html  
    place.knots                             html  
    plot.gam                                html  
    polys.plot                              html  
    predict.bam                             html  
    predict.gam                             html  
    print.gam                               html  
    psum.chisq                              html  
    qq.gam                                  html  
    rTweedie                                html  
    random.effects                          html  
    residuals.gam                           html  
    rig                                     html  
    rmvn                                    html  
    s                                       html  
    scat                                    html  
    sdiag                                   html  
    shash                                   html  
    single.index                            html  
    slanczos                                html  
    smooth.construct                        html  
    smooth.construct.ad.smooth.spec         html  
    smooth.construct.bs.smooth.spec         html  
    smooth.construct.cr.smooth.spec         html  
    smooth.construct.ds.smooth.spec         html  
    smooth.construct.fs.smooth.spec         html  
    smooth.construct.gp.smooth.spec         html  
    smooth.construct.mrf.smooth.spec        html  
    smooth.construct.ps.smooth.spec         html  
    smooth.construct.re.smooth.spec         html  
    smooth.construct.so.smooth.spec         html  
    smooth.construct.sos.smooth.spec        html  
    smooth.construct.sz.smooth.spec         html  
    smooth.construct.t2.smooth.spec         html  
    smooth.construct.tensor.smooth.spec     html  
    smooth.construct.tp.smooth.spec         html  
    smooth.info                             html  
    smooth.terms                            html  
    smooth2random                           html  
    smoothCon                               html  
    sp.vcov                                 html  
    spasm.construct                         html  
    step.gam                                html  
    summary.gam                             html  
    t2                                      html  
    te                                      html  
    tensor.prod.model.matrix                html  
    totalPenaltySpace                       html  
    trichol                                 html  
    trind.generator                         html  
    twlss                                   html  
    uniquecombs                             html  
    vcov.gam                                html  
    vis.gam                                 html  
    ziP                                     html  
    ziplss                                  html  
** building package indices
** testing if installed package can be loaded
* DONE (mgcv)
Making 'packages.html' ... done
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/Recommended'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library/Recommended'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
building/updating vignettes for package 'grid' ...
building/updating vignettes for package 'parallel' ...
building/updating vignettes for package 'utils' ...
building/updating vignettes for package 'stats' ...
processing 'reshape.Rnw'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/library'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2'
configuring Java ...
Java interpreter : /usr/bin/java
Java version     : 17.0.14
Java home path   : /usr/lib/jvm/jre
Java compiler    : /usr/bin/javac
Java headers gen.: 
Java archive tool: /usr/bin/jar
trying to compile and link a JNI program 
detected JNI cpp flags    : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux
detected JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm
using C compiler: 'gcc (GCC) 11.5.0 20240719 (Red Hat 11.5.0-5)'
make[2]: Entering directory '/tmp/Rjavareconf.DClyWX'
gcc -I"/builddir/build/BUILD/R-4.4.2/include" -DNDEBUG -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux  -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -c conftest.c -o conftest.o
gcc -shared -L/builddir/build/BUILD/R-4.4.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o conftest.so conftest.o -L/usr/lib/jvm/jre/lib/server -ljvm -L/builddir/build/BUILD/R-4.4.2/lib -lR
make[2]: Leaving directory '/tmp/Rjavareconf.DClyWX'
JAVA_HOME        : /usr/lib/jvm/jre
Java library path: $(JAVA_HOME)/lib/server
JNI cpp flags    : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux
JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm
Updating Java configuration in /builddir/build/BUILD/R-4.4.2
Done.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2'
+ cd src/nmath/standalone
+ make
(cd ../../include; make Rmath.h)
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/include'
make[1]: 'Rmath.h' is up to date.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/include'
Copying source files
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/nmath/standalone'
making mlutils.d from mlutils.c
making d1mach.d from d1mach.c
making i1mach.d from i1mach.c
making fmax2.d from fmax2.c
making fmin2.d from fmin2.c
making fprec.d from fprec.c
making fround.d from fround.c
making ftrunc.d from ftrunc.c
making sign.d from sign.c
making fsign.d from fsign.c
making imax2.d from imax2.c
making imin2.d from imin2.c
making chebyshev.d from chebyshev.c
making log1p.d from log1p.c
making lgammacor.d from lgammacor.c
making gammalims.d from gammalims.c
making stirlerr.d from stirlerr.c
making bd0.d from bd0.c
making gamma.d from gamma.c
making lgamma.d from lgamma.c
making gamma_cody.d from gamma_cody.c
making beta.d from beta.c
making lbeta.d from lbeta.c
making polygamma.d from polygamma.c
making cospi.d from cospi.c
making bessel_i.d from bessel_i.c
making bessel_j.d from bessel_j.c
making bessel_k.d from bessel_k.c
making bessel_y.d from bessel_y.c
making choose.d from choose.c
making snorm.d from snorm.c
making sexp.d from sexp.c
making dgamma.d from dgamma.c
making pgamma.d from pgamma.c
making qgamma.d from qgamma.c
making rgamma.d from rgamma.c
making dbeta.d from dbeta.c
making pbeta.d from pbeta.c
making qbeta.d from qbeta.c
making rbeta.d from rbeta.c
making dunif.d from dunif.c
making punif.d from punif.c
making qunif.d from qunif.c
making runif.d from runif.c
making dnorm.d from dnorm.c
making pnorm.d from pnorm.c
making qnorm.d from qnorm.c
making rnorm.d from rnorm.c
making dlnorm.d from dlnorm.c
making plnorm.d from plnorm.c
making qlnorm.d from qlnorm.c
making rlnorm.d from rlnorm.c
making df.d from df.c
making pf.d from pf.c
making qf.d from qf.c
making rf.d from rf.c
making dnf.d from dnf.c
making dt.d from dt.c
making pt.d from pt.c
making qt.d from qt.c
making rt.d from rt.c
making dnt.d from dnt.c
making dchisq.d from dchisq.c
making pchisq.d from pchisq.c
making qchisq.d from qchisq.c
making rchisq.d from rchisq.c
making rnchisq.d from rnchisq.c
making dbinom.d from dbinom.c
making pbinom.d from pbinom.c
making qbinom.d from qbinom.c
making rbinom.d from rbinom.c
making rmultinom.d from rmultinom.c
making dcauchy.d from dcauchy.c
making pcauchy.d from pcauchy.c
making qcauchy.d from qcauchy.c
making rcauchy.d from rcauchy.c
making dexp.d from dexp.c
making pexp.d from pexp.c
making qexp.d from qexp.c
making rexp.d from rexp.c
making dgeom.d from dgeom.c
making pgeom.d from pgeom.c
making qgeom.d from qgeom.c
making rgeom.d from rgeom.c
making dhyper.d from dhyper.c
making phyper.d from phyper.c
making qhyper.d from qhyper.c
making rhyper.d from rhyper.c
making dnbinom.d from dnbinom.c
making pnbinom.d from pnbinom.c
making qnbinom.d from qnbinom.c
making qnbinom_mu.d from qnbinom_mu.c
making rnbinom.d from rnbinom.c
making dpois.d from dpois.c
making ppois.d from ppois.c
making qpois.d from qpois.c
making rpois.d from rpois.c
making dweibull.d from dweibull.c
making pweibull.d from pweibull.c
making qweibull.d from qweibull.c
making rweibull.d from rweibull.c
making dlogis.d from dlogis.c
making plogis.d from plogis.c
making qlogis.d from qlogis.c
making rlogis.d from rlogis.c
making dnchisq.d from dnchisq.c
making pnchisq.d from pnchisq.c
making qnchisq.d from qnchisq.c
making dnbeta.d from dnbeta.c
making pnbeta.d from pnbeta.c
making qnbeta.d from qnbeta.c
making pnf.d from pnf.c
making pnt.d from pnt.c
making qnf.d from qnf.c
making qnt.d from qnt.c
making ptukey.d from ptukey.c
making qtukey.d from qtukey.c
making toms708.d from toms708.c
making wilcox.d from wilcox.c
making signrank.d from signrank.c
making std_unif.d from std_unif.c
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/nmath/standalone'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/nmath/standalone'
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c mlutils.c -o mlutils.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c d1mach.c -o d1mach.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c i1mach.c -o i1mach.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fmax2.c -o fmax2.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fmin2.c -o fmin2.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fprec.c -o fprec.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fround.c -o fround.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ftrunc.c -o ftrunc.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c sign.c -o sign.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fsign.c -o fsign.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c imax2.c -o imax2.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c imin2.c -o imin2.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c chebyshev.c -o chebyshev.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c log1p.c -o log1p.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lgammacor.c -o lgammacor.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gammalims.c -o gammalims.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c stirlerr.c -o stirlerr.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bd0.c -o bd0.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gamma.c -o gamma.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lgamma.c -o lgamma.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gamma_cody.c -o gamma_cody.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c beta.c -o beta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lbeta.c -o lbeta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c polygamma.c -o polygamma.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c cospi.c -o cospi.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_i.c -o bessel_i.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_j.c -o bessel_j.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_k.c -o bessel_k.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_y.c -o bessel_y.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c choose.c -o choose.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c snorm.c -o snorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c sexp.c -o sexp.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dgamma.c -o dgamma.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pgamma.c -o pgamma.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qgamma.c -o qgamma.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rgamma.c -o rgamma.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dbeta.c -o dbeta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pbeta.c -o pbeta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qbeta.c -o qbeta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rbeta.c -o rbeta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dunif.c -o dunif.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c punif.c -o punif.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qunif.c -o qunif.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c runif.c -o runif.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnorm.c -o dnorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnorm.c -o pnorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnorm.c -o qnorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnorm.c -o rnorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dlnorm.c -o dlnorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c plnorm.c -o plnorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qlnorm.c -o qlnorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rlnorm.c -o rlnorm.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c df.c -o df.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pf.c -o pf.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qf.c -o qf.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rf.c -o rf.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnf.c -o dnf.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dt.c -o dt.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pt.c -o pt.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qt.c -o qt.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rt.c -o rt.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnt.c -o dnt.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dchisq.c -o dchisq.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pchisq.c -o pchisq.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qchisq.c -o qchisq.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rchisq.c -o rchisq.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnchisq.c -o rnchisq.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dbinom.c -o dbinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pbinom.c -o pbinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qbinom.c -o qbinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rbinom.c -o rbinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rmultinom.c -o rmultinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dcauchy.c -o dcauchy.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pcauchy.c -o pcauchy.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qcauchy.c -o qcauchy.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rcauchy.c -o rcauchy.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dexp.c -o dexp.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pexp.c -o pexp.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qexp.c -o qexp.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rexp.c -o rexp.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dgeom.c -o dgeom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pgeom.c -o pgeom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qgeom.c -o qgeom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rgeom.c -o rgeom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dhyper.c -o dhyper.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c phyper.c -o phyper.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qhyper.c -o qhyper.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rhyper.c -o rhyper.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnbinom.c -o dnbinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnbinom.c -o pnbinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbinom.c -o qnbinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbinom_mu.c -o qnbinom_mu.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnbinom.c -o rnbinom.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dpois.c -o dpois.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ppois.c -o ppois.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qpois.c -o qpois.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rpois.c -o rpois.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dweibull.c -o dweibull.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pweibull.c -o pweibull.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qweibull.c -o qweibull.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rweibull.c -o rweibull.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dlogis.c -o dlogis.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c plogis.c -o plogis.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qlogis.c -o qlogis.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rlogis.c -o rlogis.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnchisq.c -o dnchisq.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnchisq.c -o pnchisq.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnchisq.c -o qnchisq.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnbeta.c -o dnbeta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnbeta.c -o pnbeta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbeta.c -o qnbeta.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnf.c -o pnf.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnt.c -o pnt.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnf.c -o qnf.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnt.c -o qnt.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ptukey.c -o ptukey.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qtukey.c -o qtukey.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c toms708.c -o toms708.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c wilcox.c -o wilcox.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c signrank.c -o signrank.o
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c std_unif.c -o std_unif.o
ar -cr libRmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o std_unif.o
ranlib libRmath.a
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/nmath/standalone'
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/nmath/standalone'
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c mlutils.c -o mlutils.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c d1mach.c -o d1mach.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c i1mach.c -o i1mach.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fmax2.c -o fmax2.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fmin2.c -o fmin2.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fprec.c -o fprec.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fround.c -o fround.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ftrunc.c -o ftrunc.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c sign.c -o sign.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fsign.c -o fsign.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c imax2.c -o imax2.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c imin2.c -o imin2.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c chebyshev.c -o chebyshev.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c log1p.c -o log1p.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lgammacor.c -o lgammacor.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gammalims.c -o gammalims.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c stirlerr.c -o stirlerr.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bd0.c -o bd0.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gamma.c -o gamma.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lgamma.c -o lgamma.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gamma_cody.c -o gamma_cody.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c beta.c -o beta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lbeta.c -o lbeta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c polygamma.c -o polygamma.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c cospi.c -o cospi.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_i.c -o bessel_i.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_j.c -o bessel_j.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_k.c -o bessel_k.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_y.c -o bessel_y.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c choose.c -o choose.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c snorm.c -o snorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c sexp.c -o sexp.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dgamma.c -o dgamma.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pgamma.c -o pgamma.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qgamma.c -o qgamma.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rgamma.c -o rgamma.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dbeta.c -o dbeta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pbeta.c -o pbeta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qbeta.c -o qbeta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rbeta.c -o rbeta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dunif.c -o dunif.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c punif.c -o punif.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qunif.c -o qunif.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c runif.c -o runif.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnorm.c -o dnorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnorm.c -o pnorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnorm.c -o qnorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnorm.c -o rnorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dlnorm.c -o dlnorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c plnorm.c -o plnorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qlnorm.c -o qlnorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rlnorm.c -o rlnorm.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c df.c -o df.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pf.c -o pf.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qf.c -o qf.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rf.c -o rf.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnf.c -o dnf.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dt.c -o dt.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pt.c -o pt.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qt.c -o qt.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rt.c -o rt.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnt.c -o dnt.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dchisq.c -o dchisq.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pchisq.c -o pchisq.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qchisq.c -o qchisq.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rchisq.c -o rchisq.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnchisq.c -o rnchisq.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dbinom.c -o dbinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pbinom.c -o pbinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qbinom.c -o qbinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rbinom.c -o rbinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rmultinom.c -o rmultinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dcauchy.c -o dcauchy.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pcauchy.c -o pcauchy.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qcauchy.c -o qcauchy.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rcauchy.c -o rcauchy.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dexp.c -o dexp.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pexp.c -o pexp.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qexp.c -o qexp.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rexp.c -o rexp.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dgeom.c -o dgeom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pgeom.c -o pgeom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qgeom.c -o qgeom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rgeom.c -o rgeom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dhyper.c -o dhyper.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c phyper.c -o phyper.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qhyper.c -o qhyper.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rhyper.c -o rhyper.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnbinom.c -o dnbinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnbinom.c -o pnbinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbinom.c -o qnbinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbinom_mu.c -o qnbinom_mu.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnbinom.c -o rnbinom.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dpois.c -o dpois.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ppois.c -o ppois.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qpois.c -o qpois.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rpois.c -o rpois.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dweibull.c -o dweibull.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pweibull.c -o pweibull.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qweibull.c -o qweibull.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rweibull.c -o rweibull.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dlogis.c -o dlogis.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c plogis.c -o plogis.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qlogis.c -o qlogis.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rlogis.c -o rlogis.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnchisq.c -o dnchisq.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnchisq.c -o pnchisq.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnchisq.c -o qnchisq.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnbeta.c -o dnbeta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnbeta.c -o pnbeta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbeta.c -o qnbeta.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnf.c -o pnf.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnt.c -o pnt.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnf.c -o qnf.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnt.c -o qnt.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ptukey.c -o ptukey.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qtukey.c -o qtukey.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c toms708.c -o toms708.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c wilcox.c -o wilcox.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c signrank.c -o signrank.lo
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c std_unif.c -o std_unif.lo
gcc -shared -fopenmp -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -o libRmath.so  mlutils.lo d1mach.lo i1mach.lo fmax2.lo fmin2.lo fprec.lo fround.lo ftrunc.lo sign.lo fsign.lo imax2.lo imin2.lo chebyshev.lo log1p.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.lo cospi.lo bessel_i.lo bessel_j.lo bessel_k.lo bessel_y.lo choose.lo snorm.lo sexp.lo dgamma.lo pgamma.lo qgamma.lo rgamma.lo dbeta.lo pbeta.lo qbeta.lo rbeta.lo dunif.lo punif.lo qunif.lo runif.lo dnorm.lo pnorm.lo qnorm.lo rnorm.lo dlnorm.lo plnorm.lo qlnorm.lo rlnorm.lo df.lo pf.lo qf.lo rf.lo dnf.lo dt.lo pt.lo qt.lo rt.lo dnt.lo dchisq.lo pchisq.lo qchisq.lo rchisq.lo rnchisq.lo dbinom.lo pbinom.lo qbinom.lo rbinom.lo rmultinom.lo dcauchy.lo pcauchy.lo qcauchy.lo rcauchy.lo dexp.lo pexp.lo qexp.lo rexp.lo dgeom.lo pgeom.lo qgeom.lo rgeom.lo dhyper.lo phyper.lo qhyper.lo rhyper.lo dnbinom.lo pnbinom.lo qnbinom.lo qnbinom_mu.lo rnbinom.lo dpois.lo ppois.lo qpois.lo rpois.lo dweibull.lo pweibull.lo qweibull.lo rweibull.lo dlogis.lo plogis.lo qlogis.lo rlogis.lo dnchisq.lo pnchisq.lo qnchisq.lo dnbeta.lo pnbeta.lo qnbeta.lo pnf.lo pnt.lo qnf.lo qnt.lo ptukey.lo qtukey.lo toms708.lo wilcox.lo signrank.lo std_unif.lo -lm
lto-wrapper: warning: using serial compilation of 2 LTRANS jobs
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/nmath/standalone'
+ make pdf
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc/manual'
creating doc/manual/version.tex
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PDF/LaTeX documentation: full reference index ...
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Chapter 1.
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[]\T1/ptm/m/n/10 the small-est pos-i-tive floating-point num-ber []\T1/pcr/m/n/
10 x []\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 + x != 1[]\T1/ptm/m/n/10 .
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\T1/ptm/m/n/10 It equals []\T1/pcr/m/n/10 double.base ^ ulp.digits []\T1/ptm/m/
n/10 if ei-ther []\T1/pcr/m/n/10 double.base []\T1/ptm/m/n/10 is
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\T1/ptm/m/n/10 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0; oth
-er-wise, it is []\T1/pcr/m/n/10 (double.base ^
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[]\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/pcr/m/n/10 x [
]\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It
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\T1/ptm/m/n/10 equals []\T1/pcr/m/n/10 double.base ^ double.neg.ulp.digits []\T
1/ptm/m/n/10 if []\T1/pcr/m/n/10 double.base
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[]\T1/ptm/m/n/10 is 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0
; oth-er-wise, it is []\T1/pcr/m/n/10 (double.base
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\T1/pcr/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/p
cr/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As
[5]
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[]\T1/ptm/m/n/10 the num-ber of \T1/ptm/m/it/10 bytes \T1/ptm/m/n/10 in the C [
]\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 type: a 64-bit []\T1/pcr/m/n/10 time_t 
[]\T1/ptm/m/n/10 (value
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[]\T1/pcr/m/n/10 8[]\T1/ptm/m/n/10 ) is much pre-ferred these days. Note that t
his is the type used by
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[]\T1/ptm/m/n/10 introduced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.0.0. When [][]
[]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 is
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[]\T1/pcr/m/n/10 *.exponent[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 *.min.exp[]\T1/p
tm/m/n/10 , and []\T1/pcr/m/n/10 *.max.exp[]\T1/ptm/m/n/10 , com-puted en-tirel
y anal-o-gously to their
[6]
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[]\T1/ptm/m/n/10 Note that it is le-gal for a plat-form to have a `[]\T1/pcr/m/
n/10 long double[]\T1/ptm/m/n/10 ' C type which is
Underfull \hbox (badness 6691) in paragraph at lines 255--260
\T1/ptm/m/n/10 iden-ti-cal to the `[]\T1/pcr/m/n/10 double[]\T1/ptm/m/n/10 ' ty
pe --- this hap-pens on ARM CPUs. In that case
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[][][]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 will be
 false but on ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 prior to 4.0.4,
[7]
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[][][]\T1/pcr/m/n/10 R.version[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 
Sys.info[][][] []\T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-l
ar,
[8] [9] [10]
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[]\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[]
\T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ',
[11]
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 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, v
alue = TRUE)[] 
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 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, i
gnore.case = TRUE)[] 
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 []          \T1/pcr/m/n/10 ..., check.attributes = TRUE, check.class = TRUE, g
iveErr = FALSE)[] 
[14] [15]
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 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) 
# "absolute"[] 
[16]
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 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean 
rel.diff.=",[] 
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 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE)# "target is 
bar, current is numeric"[] 
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 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE, check.class 
= FALSE) # TRUE[] 
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 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F
ALSE) 
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Underfull \hbox (badness 1221) in paragraph at lines 1535--1541
[]\T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion, where \T1/phv/m/n/10 R \T1/p
tm/m/n/10 uses ``floored'' in-te-ger di-vi-sion, i.e., []\T1/pcr/m/n/10 q <- x 
%/% y :=
[26]
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\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle
 . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[27] [28] [29] [30]
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 []              \T1/pcr/m/n/10 cut.names = FALSE, col.names = names(x), fix.em
pty.names = TRUE,[] 
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[]\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more
 than 256 (or
[32] [33] [34] [35]
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 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen
t-date-and-times-in-MATLAB.html)[] 
[36]
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[]\T1/ptm/m/n/10 If [][][]\T1/pcr/m/n/10 is.object[][][](x) []\T1/ptm/m/n/10 is
 true and it has a [][][]\T1/pcr/m/n/10 class[][][] []\T1/ptm/m/n/10 for which 
an
[37] [38] [39] [40]
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 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla
ss "POSIXlt"[] 
[41] [42] [43]
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[]\T1/ptm/m/n/10 There are no re-stric-tions on the name given as []\T1/pcr/m/n
/10 x[]\T1/ptm/m/n/10 : it can be a non-syntactic name (see
[44] [45]
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 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back
tick=FALSE), 
[46] [47] [48] [49] [50] [51] [52]
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[]\T1/pcr/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[]
[][] ver-sion of []\T1/pcr/m/n/10 balancePOSIXlt(x,
[53] [54] [55] [56]
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 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", nus), col = nus + 2, 
lwd = 1, bty="n")[] 
[57]
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 []\T1/pcr/m/n/9 plot(range(x0), c(1e-40, 1), log = "xy", xlab = "x", ylab = ""
, type = "n",[] 
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 []     \T1/pcr/m/n/9 main = "Bessel Functions  J_nu(x)  near 0\n log - log  sc
ale") ; axis(2, at=1)[] 
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 []\T1/pcr/m/n/9 plot(range(x0), 10^c(-100, 80), log = "xy", xlab = "x", ylab =
 "", type = "n",[] 
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 []     \T1/pcr/m/n/9 main = "Bessel Functions  K_nu(x)  near 0\n log - log  sc
ale") ; axis(2, at=1)[] 
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 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", paste(nus, nus + 0.5,
 sep = ", ")),[] 
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[]\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim
-ited by set-ting
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 []\T1/pcr/m/n/9 L <- as.list(E <- setNames( , c("if", "for", "while", "repeat"
, "function",[] 
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 []                                  \T1/pcr/m/n/9 "(", "{", "[",  "<-", "<<-",
 "->", "=")))[] 
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 []\T1/pcr/m/n/9 for(i in seq_along(L)) L[[i]] <- call(E[[i]]) # instead of lap
ply(E, call) ..[] 
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 []\T1/pcr/m/n/9 list_ <- function (...) \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 names<-
\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 (list(...), vapply(sys.call()[-1L], as.character
, ""))[] 
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 []\T1/pcr/m/n/9 (Tab <- noquote(sapply(list_(is.call, typeof, class, mode), \(
F) sapply(L, F))))[] 
[72]
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[]\T1/ptm/m/n/10 a char-ac-ter string giv-ing the name of a C func-tion, or an 
ob-ject
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\T1/ptm/m/n/10 of class []\T1/pcr/m/n/10 "[][]NativeSymbolInfo[][][]"[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 "[][]RegisteredNativeSymbol[][][]" []\T1/ptm/m/n/10 o
r
[73]
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 []             \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif
f")))[] 
[74]
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[]\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par
-i-son[][][] and
[75] [76] [77]
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 []\T1/pcr/m/n/9 cat(paste(letters, 100* 1:26), fill = TRUE, labels = paste0("{
", 1:10, "}:"))[] 
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[]\T1/ptm/m/n/10 (generalized) vec-tors or ma-tri-ces. These can be given as na
med ar-gu-
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[]\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu
e and valid
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 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna
mes (default)[] 
[81] [82]
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 []\T1/pcr/m/n/9 as.character(list(A = "Abc", xy = c("x", "y"))) # "Abc"  "c(\"
x\", \"y\")"[] 
[83]
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c
har-ac-ter by
[84] [85] [86] [87] [88] [89] [90] [91]
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[]\T1/ptm/m/n/10 When a generic func-tion []\T1/pcr/m/n/10 fun []\T1/ptm/m/n/10
 is ap-plied to an ob-ject with class at-tribute []\T1/pcr/m/n/10 c("first",
[92] [93] [94] [95] [96] [97] [98] [99]
Underfull \hbox (badness 1796) in paragraph at lines 6616--6624
[]\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i
n-tro-duc-tion see [][]$\T1/pcr/m/n/10 https : / /
[100] [101] [102]
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 []\T1/pcr/m/n/9 stopifnot(identical(as.complex(NA_real_), NA_real_ + 0i)) # ha
s always been true[] 
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 []\T1/pcr/m/n/9 NAs <- vapply(list(NA, NA_integer_, NA_real_, NA_character_, N
A_complex_),[] 
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 []\T1/pcr/m/n/9 ## The exact result of this *depends* on the platform, compile
r, math-library:[] 
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 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex
_)), is.na(Im(NA_complex_)))[] 
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[]\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class []\T1/pcr/m/n
/10 interrupt []\T1/ptm/m/n/10 that in-her-its di-rectly from class
[105]
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[]\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. 
They can be es-tab-lished us-ing
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[]\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i
s []\T1/pcr/m/n/10 interactive[]\T1/ptm/m/n/10 . This should
[106] [107]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 7252--7252
 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e
ncoding"))[] 
[108]
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[]\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de
fault", "internal",
[109] [110]
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[]\T1/pcr/m/n/10 file[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pipe[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 fifo[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 url[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 gzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bzfile[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 xzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 unz[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 ,
[111] [112] [113]
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[]\T1/ptm/m/n/10 It may be pos-si-ble to de-duce the cur-rent na-tive en-cod-in
g from
[114]
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[]\T1/pcr/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/pcr/m/n/10 descri
ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/pcr/m/n/10 "r" []\T1/ptm/m/n
/10 only. This
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\T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http
s : / / specifications . freedesktop .
Underfull \hbox (badness 1735) in paragraph at lines 7730--7737
[]\T1/pcr/m/n/10 "X11_primary" []\T1/ptm/m/n/10 and the sec-ondary se-lec-tion 
as []\T1/pcr/m/n/10 "X11_secondary"[]\T1/ptm/m/n/10 . On most sys-
[115] [116]
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Overfull \hbox (4.38043pt too wide) in paragraph at lines 7976--7976
 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE"))
; close(con)[] 
[118] [119] [120] [121] [122]
Underfull \hbox (badness 10000) in paragraph at lines 8331--8333
[]\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th
e call to
[123] [124] [125]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8490--8490
 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org")   ## this redirect
s to https://[] 
[126] [127] [128]
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 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng
th.out = 24)[] 
[129] [130]
Underfull \hbox (badness 10000) in paragraph at lines 8840--8850
[]\T1/pcr/m/n/10 data.frame []\T1/ptm/m/n/10 con-verts each of its ar-gu-ments 
to a data frame by call-ing
Underfull \hbox (badness 1975) in paragraph at lines 8840--8850
[][][]\T1/pcr/m/n/10 as.data.frame[][][](optional = TRUE)[]\T1/ptm/m/n/10 . As 
that is a generic func-tion, meth-ods can be
[131] [132] [133]
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 []                 \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l
ength.out = 3),[] 
[134] [135] [136] [137]
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\T1/pcr/m/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") []\T1/ptm/m
/n/10 may give []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 , and
[138] [139] [140] [141] [142] [143] [144] [145]
Underfull \hbox (badness 10000) in paragraph at lines 9893--9897
[]\T1/pcr/m/n/10 .Defunct []\T1/ptm/m/n/10 is called from de-funct func-tions. 
Func-tions should be listed in
[146]
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 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]:  --------
-------------[] 
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 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(cos, "y", {cat(" HO
!\n"); pi+2})[] 
[147]
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 []        \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "(
", "function"),[] 
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 []        \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh
owAttributes"),[] 
[148]
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[]\T1/pcr/m/n/10 ..deparseOpts []\T1/ptm/m/n/10 is the [][][]\T1/pcr/m/n/10 cha
racter[][][] []\T1/ptm/m/n/10 vec-tor of pos-si-ble de-pars-ing op-tions used b
y
[149]
Underfull \hbox (badness 6063) in paragraph at lines 10161--10163
[]\T1/ptm/m/n/10 Surround un-eval-u-ated ex-pres-sions, but not [][][]\T1/pcr/m
/n/10 formula[][][][]\T1/ptm/m/n/10 s, with
[150] [151] [152]
Underfull \hbox (badness 1603) in paragraph at lines 10390--10393
[]\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t
er-mi-nant if
[153] [154] [155] [156] [157] [158]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 10858--10858
 []    \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0
0:01"))[] 
[159] [160] [161]
Underfull \hbox (badness 1917) in paragraph at lines 11022--11027
[]\T1/pcr/m/n/10 provideDimnames(x) []\T1/ptm/m/n/10 pro-vides []\T1/pcr/m/n/10
 dimnames []\T1/ptm/m/n/10 where ``miss-ing'', such that its re-sult has
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 []\T1/pcr/m/n/9 strd(provideDimnames(N, base= list(letters[-(1:9)], tail(LETTE
RS)))) # recycling[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11078--11078
 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling
 on both levels[] 
[162] [163]
Underfull \hbox (badness 1168) in paragraph at lines 11180--11185
[]\T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of []\
T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . Cur-rently this is only used by
[164]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11282--11282
 []\T1/pcr/m/n/9 ## From R 4.1.0 to 4.1.2, ...names() sometimes did not match n
ames(list(...));[] 
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 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()),
 names(list(...))))[] 
[165] [166]
Underfull \hbox (badness 2828) in paragraph at lines 11403--11408
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ 754-[]19
85$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
Underfull \hbox (badness 10000) in paragraph at lines 11403--11408
\T1/pcr/m/n/10 org / wiki / IEEE _ 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr
/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _
Underfull \hbox (badness 10000) in paragraph at lines 11403--11408
\T1/pcr/m/n/10 754-[]2019$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / 
en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/
pcr/m/n/10 https :
[167]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 11434--11434
 []     \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA
ttributes"))[] 
[168]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 11508--11508
 []\T1/pcr/m/n/9 ## Write an ASCII version of the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9
 base\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 function mean() to our temp file, ..[] 
[169]
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 []\T1/pcr/m/n/9 drop(1:3 %*% 2:4)  # scalar product - w/o drop(.), would retur
n 1x1 matrix[] 
[170]
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 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon
th.abb[5:9])) 
[171] [172] [173]
Underfull \hbox (badness 6396) in paragraph at lines 11864--11872
[]\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len
t method def-i-ni-tions for
Underfull \hbox (badness 10000) in paragraph at lines 11873--11875
[]\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len
t to but faster than
[174] [175] [176]
Underfull \hbox (badness 10000) in paragraph at lines 12090--12093
[]\T1/ptm/m/n/10 Do not use []\T1/pcr/m/n/10 dyn.unload []\T1/ptm/m/n/10 on a D
LL loaded by [][][]\T1/pcr/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 : use
[177] [178] [179] [180] [181] [182]
Underfull \hbox (badness 2744) in paragraph at lines 12533--12535
[]\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma
y lead to con-fu-sion (see
[183]
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 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12
52 loc.) | ....[] 
[184] [185] [186]
Underfull \hbox (badness 5288) in paragraph at lines 12808--12810
[]\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val
ue of
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[]\T1/ptm/m/n/10 Optional. The path to Ghostscript, used by [][][]\T1/pcr/m/n/1
0 dev2bitmap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bitmap[][][] []\T1/pt
m/m/n/10 and
[187]
Underfull \hbox (badness 10000) in paragraph at lines 12875--12878
[]\T1/ptm/m/n/10 The path to HTML []\T1/pcr/m/n/10 tidy[]\T1/ptm/m/n/10 . Used 
by []\T1/pcr/m/n/10 R CMD check []\T1/ptm/m/n/10 if
Underfull \hbox (badness 10000) in paragraph at lines 12893--12895
[]\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for
[188] [189] [190] [191]
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[]\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing []\T1/pc
r/m/n/10 where []\T1/ptm/m/n/10 as
Underfull \hbox (badness 5970) in paragraph at lines 13186--13188
[]\T1/pcr/m/n/10 get0(): []\T1/ptm/m/n/10 The object---as from [][][]\T1/pcr/m/
n/10 get[][][](x, *)[]\T1/ptm/m/n/10 --- if []\T1/pcr/m/n/10 exists(x, *) []\T1
/ptm/m/n/10 is true, oth-er-wise
[192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 14001--14001
 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes.   Could provide 
a constructor[] 
[203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213]
Underfull \hbox (badness 2253) in paragraph at lines 14737--14739
[]\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is
 done: see
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[]\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m
a-tion is given about the
[214] [215]
Underfull \hbox (badness 2573) in paragraph at lines 14905--14907
[]\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/pcr
/m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 R_LIBS []\T1/ptm/m/n/10 with
 []\T1/pcr/m/n/10 fsep =
[216] [217]
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[]\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See
[218] [219]
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[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 unlink[][][][]\T1
/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 15198--15201
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][
] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
Overfull \hbox (47.58038pt too wide) in paragraph at lines 15219--15219
 []                     \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B 
as it exists already[] 
[220]
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 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode
 = "0777")[] 
[221]
Underfull \hbox (badness 10000) in paragraph at lines 15339--15342
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/
m/n/10 unlink[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 basename[][][][]\T1/
ptm/m/n/10 ,
Overfull \hbox (9.78043pt too wide) in paragraph at lines 15349--15349
 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu
rsive = TRUE)[] 
[222]
Underfull \hbox (badness 10000) in paragraph at lines 15415--15418
[]\T1/pcr/m/n/10 packageNotFoundError []\T1/ptm/m/n/10 cre-ates an er-ror con-d
i-tion ob-ject of class
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 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio
ns it is found:[] 
[223]
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 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F
ALSE, 
Underfull \hbox (badness 3965) in paragraph at lines 15493--15497
[]\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr
i-bu-tion func-tion, and in-deed,
[224] [225] [226]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15657--15657
 []       \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING) 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15658--15658
 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING)[] 
[227] [228] [229] [230]
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 []\T1/pcr/m/n/9 ## formals returns a pairlist. Arguments with no default have 
type symbol (aka name).[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 15903--15903
 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions.  Use it in co
mbination with[] 
[231]
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[]\T1/ptm/m/n/10 either a log-i-cal spec-i-fy-ing whether el-e-ments of a real 
or com-plex vec-
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\T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger 
penalty (see
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[]\T1/pcr/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 big.interval[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sma
ll.interval[]\T1/ptm/m/n/10 ,
[232]
Underfull \hbox (badness 6944) in paragraph at lines 16084--16087
[][][]\T1/pcr/m/n/10 formatC[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 paste
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 sprintf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p
rint[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 prettyNum[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 toString[][][][]\T1/ptm/m/n/10 ,
[233]
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 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1
0,100,1000),[] 
[234] [235]
Underfull \hbox (badness 10000) in paragraph at lines 16252--16254
[]\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 is used for ``pret-ti-fy-ing'' (p
os-si-bly for-mat-ted) num-bers, also in
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 []          \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = 
decimal.mark,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 16278--16278
 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric
(x)),[] 
Underfull \hbox (badness 2790) in paragraph at lines 16285--16288
[]\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][]
[]\T1/pcr/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for
[236]
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[]\T1/pcr/m/n/10 "f" []\T1/ptm/m/n/10 gives num-bers in the usual []\T1/pcr/m/n
/10 xxx.xxx []\T1/ptm/m/n/10 for-mat; []\T1/pcr/m/n/10 "e" []\T1/ptm/m/n/10 and
 []\T1/pcr/m/n/10 "E" []\T1/ptm/m/n/10 give
[237]
Underfull \hbox (badness 10000) in paragraph at lines 16392--16394
[]\T1/ptm/m/n/10 This works via []\T1/pcr/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , 
which calls []\T1/pcr/m/n/10 .format.zeros(*,
Underfull \hbox (badness 10000) in paragraph at lines 16414--16419
[]\T1/ptm/m/n/10 For num-bers, []\T1/pcr/m/n/10 formatC() []\T1/ptm/m/n/10 call
s []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 when needed which it-self calls
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[]\T1/ptm/m/n/10 If you set []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 it over-ri
des the set-ting of []\T1/pcr/m/n/10 mode[]\T1/ptm/m/n/10 , so []\T1/pcr/m/n/10
 formatC(123.45, mode =
Underfull \hbox (badness 10000) in paragraph at lines 16431--16439
[]\T1/pcr/m/n/10 prettyNum []\T1/ptm/m/n/10 is the util-ity func-tion for pret-
ti-fy-ing []\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 x []\T1/ptm/m/n
/10 can be com-plex (or
[238] [239]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 16538--16538
 []\T1/pcr/m/n/9 fc <- formatC(1.234 + 10^(0:8), format = "fg", width = 11, big
.mark = "\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ")[] 
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Overfull \hbox (42.18039pt too wide) in paragraph at lines 16560--16560
 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you 
want see the effect[] 
[241] [242]
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 []\T1/pcr/m/n/10 Reduce(f, x, init, right = FALSE, accumulate = FALSE, simplif
y = TRUE) 
[243] [244] [245] [246] [247] [248] [249] [250] [251] [252]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17406--17406
 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil
l a DLLInfoList[] 
[253]
Underfull \hbox (badness 2418) in paragraph at lines 17515--17519
\T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [
]\T1/pcr/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CallRoutine[]\T1/pt
m/m/n/10 ,
Underfull \hbox (badness 6510) in paragraph at lines 17522--17525
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 name []\T1/ptm/m/n/10 con-tains only one s
ym-bol name and []\T1/pcr/m/n/10 unlist []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TR
UE[]\T1/ptm/m/n/10 , then the sin-gle
[254]
Underfull \hbox (badness 2326) in paragraph at lines 17557--17564
[][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 is.loaded[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .C[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Fortran[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 .External[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Call[][][][]
\T1/ptm/m/n/10 ,
[255] [256]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17707--17707
 []\T1/pcr/m/n/9 ## Not run: ## for translation, those strings should appear in
 R-pkg.pot as[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17728--17728
 []\T1/pcr/m/n/9 if(is.na(thisLang) || !nzchar(thisLang)) thisLang <- "en" # "f
actory" default[] 
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 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if 
translation works)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [257]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 17761--17761
 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex
ample started:[] 
[258]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17898--17898
 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F
ALSE, 
[259]
Underfull \hbox (badness 1867) in paragraph at lines 17926--17933
[]\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][]
[] (or char-ac-ter string for
[260] [261] [262] [263] [264]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18244--18244
 []  \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around 
"checking hack"[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 18273--18273
 []\T1/pcr/m/n/9 name.rex <- "(?<first>[[:upper:]][[:lower:]]+) (?<last>[[:uppe
r:]][[:lower:]]+)"[] 
Underfull \vbox (badness 10000) has occurred while \output is active [265]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 18329--18329
 []        \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F
ALSE)[] 
[266] [267] [268] [269] [270]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18704--18704
 []\T1/pcr/m/n/9 (ii <- grouping(x <- c(1, 1, 3:1, 1:4, 3), y <- c(9, 9:1), z <
- c(2, 1:9))) 
[271]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 18769--18769
 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch
12.dat.gz"))[] 
[272] [273] [274]
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 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F
ALSE) 
[275] [276]
Underfull \hbox (badness 1360) in paragraph at lines 19141--19147
[]\T1/ptm/m/n/10 The most portable name for the ISO 8859-15 en-cod-ing, com-mon
ly known as `Latin 9',
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\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 "iso885915"[]\T1/ptm/m/n/10 : most plat-form
s sup-port both []\T1/pcr/m/n/10 "latin-9" []\T1/ptm/m/n/10 and[]\T1/pcr/m/n/10
 "latin9" []\T1/ptm/m/n/10 but GNU
[277] [278] [279]
Underfull \hbox (badness 1163) in paragraph at lines 19363--19365
[]\T1/ptm/m/n/10 The ICU user guide chap-ter on col-la-tion ([][]$\T1/pcr/m/n/1
0 https : / / unicode-[]org . github . io / icu /
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19371--19371
 []\T1/pcr/m/n/9 ## As we don\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 t know the current s
ettings, we can only reset to the default.[] 
[280]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 19401--19401
 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se
t = TRUE, 
[281]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 19495--19495
 []              \T1/pcr/m/n/10 num.eq = FALSE, single.NA = FALSE, attrib.as.se
t = FALSE,[] 
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 []              \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F
ALSE,[] 
[282]
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 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------
----------------[] 
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 []\T1/pcr/m/n/9 identical(f, g)                        # TRUE, as bytecode is 
ignored by default[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 19558--19558
 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share
 an environment:[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19564--19564
 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi
ng "srcref" :[] 
[283] [284]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 19691--19691
 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u
se ifelse(),[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19699--19699
 []\T1/pcr/m/n/9 ## example of different return modes (and \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 test\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 alone determining length):[] 
[285] [286] [287]
Underfull \hbox (badness 10000) in paragraph at lines 19904--19906
[]\T1/ptm/m/n/10 how some er-rors are han-dled and re-ported, e.g. see [][][]\T
1/pcr/m/n/10 stop[][][] []\T1/ptm/m/n/10 and
[288]
Underfull \hbox (badness 2057) in paragraph at lines 20007--20033
[][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.double[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.raw[][][][]
\T1/ptm/m/n/10 ,
[289] [290] [291]
Underfull \hbox (badness 10000) in paragraph at lines 20205--20213
\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle
 . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[292] [293] [294]
Underfull \hbox (badness 4699) in paragraph at lines 20405--20408
[]\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty
pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 ,
[295] [296]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20537--20537
 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = "
GMT")[] 
[297] [298]
Underfull \hbox (badness 4739) in paragraph at lines 20672--20674
[]\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere
d, see
[299]
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 []\T1/pcr/m/n/9 isSymmetric(D3)                         # FALSE (as row and co
lumn names differ)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 20722--20722
 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE  (as names are 
not checked)[] 
[300] [301]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 20837--20837
 []\T1/pcr/m/n/10 .kappa_tri(z, exact = FALSE, LINPACK = TRUE, norm = NULL, upl
o = "U", ...)[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 20839--20839
 []\T1/pcr/m/n/10 rcond(x, norm = c("O","I","1"), triangular = FALSE, uplo = "U
", ...)[] 
[302]
Underfull \hbox (badness 2961) in paragraph at lines 20923--20926
[]\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n
etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / /
[303]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20979--20979
 []\T1/pcr/m/n/9 ## Moore-Penrose inverse { ~= MASS::ginv(); differing tol (val
ue & meaning)}:[] 
[304]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 21001--21001
 []\T1/pcr/m/n/9 try( kappa(m76, exact=TRUE, norm="1") )# error in  solve().. m
ust be square[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 21003--21003
 []\T1/pcr/m/n/9 ## ==> use pseudo-inverse instead of solve() for rectangular {
and norm != "2"}:[] 
[305] [306] [307] [308] [309] [310]
Underfull \hbox (badness 1975) in paragraph at lines 21414--21417
[]\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p
hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to
[311] [312] [313] [314] [315] [316]
Underfull \hbox (badness 1077) in paragraph at lines 21830--21835
[]\T1/ptm/m/n/10 In late 2017 a []\T1/pcr/m/n/10 libcurl []\T1/ptm/m/n/10 in-st
al-la-tion was seen di-vided into two li-braries, []\T1/pcr/m/n/10 libcurl []\T
1/ptm/m/n/10 and
Underfull \hbox (badness 10000) in paragraph at lines 21844--21851
[][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p
tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs /
[317]
Underfull \hbox (badness 1112) in paragraph at lines 21917--21926
[]\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the
 en-vi-ron-ment vari-ables []\T1/pcr/m/n/10 R_LIBS[]\T1/ptm/m/n/10 ,
[318]
Underfull \hbox (badness 2970) in paragraph at lines 21975--21978
[]\T1/pcr/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/pcr/m/n/10 C:\Us
ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a
Underfull \hbox (badness 2951) in paragraph at lines 21975--21978
\T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It 
may be opened by
[319] [320]
Underfull \hbox (badness 10000) in paragraph at lines 22088--22092
[]\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use
Underfull \hbox (badness 1454) in paragraph at lines 22088--22092
[][][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][][]\T1/ptm/m/n/10 : thi
s will sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self
Underfull \hbox (badness 1221) in paragraph at lines 22093--22100
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 is called with no
 []\T1/pcr/m/n/10 package []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 help []\T1/ptm/m
/n/10 ar-gu-ment, it lists all avail-able pack-
[321] [322]
Underfull \hbox (badness 10000) in paragraph at lines 22222--22229
[][][]\T1/pcr/m/n/10 attach[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 detach
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 search[][][][]\T1/ptm/m/n/10 , []
[][]\T1/pcr/m/n/10 objects[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 autoloa
d[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 requireNamespace[][][][]\T1/ptm/
m/n/10 ,
[323]
Underfull \hbox (badness 10000) in paragraph at lines 22343--22347
[]\T1/ptm/m/n/10 Do not use [][][]\T1/pcr/m/n/10 dyn.unload[][][] []\T1/ptm/m/n
/10 on a DLL loaded by []\T1/pcr/m/n/10 library.dynam[]\T1/ptm/m/n/10 : use
[324] [325] [326] [327]
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
[328]
Underfull \hbox (badness 3343) in paragraph at lines 22646--22650
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/
m/n/10 for many more file han-dling func-tions and
[329] [330]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 22784--22784
 []          \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments 
as for lists[] 
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 []              \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1,
 prob = 0.2))),[] 
[331] [332]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 22906--22906
 []\T1/pcr/m/n/9 ## This however annihilates all objects in .GlobalEnv with the
 same names ![] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 22909--22909
 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w
/ same name in .GlobalEnv[] 
Underfull \hbox (badness 6380) in paragraph at lines 22956--22964
[]\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways 
be sup-
[333] [334]
Underfull \hbox (badness 2564) in paragraph at lines 23060--23063
[]\T1/ptm/m/n/10 Almost all the out-put rou-tines used by \T1/phv/m/n/10 R \T1/
ptm/m/n/10 it-self un-der Win-dows ig-nore the set-ting of
Overfull \hbox (4.38043pt too wide) in paragraph at lines 23101--23101
 []\T1/pcr/m/n/9 Sys.setlocale("LC_TIME", "de_DE.UTF-8")  # Linux, macOS, other
 Unix-alikes[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 23105--23105
 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # in C_TIME locale \T
S1/pcr/m/n/9 '\T1/pcr/m/n/9 cT\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 ; typically German
[] 
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 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # "standard" (still p
latform specific ?)[] 
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 []\T1/pcr/m/n/9 ## Not run: Sys.setlocale("LC_COLLATE", "C")   # turn off loca
le-specific sorting,[] 
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 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war
ning messages[] 
[335] [336] [337]
Underfull \hbox (badness 1400) in paragraph at lines 23295--23299
[][][]\T1/pcr/m/n/10 raw[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logical[]
[][] []\T1/ptm/m/n/10 or `number-like' vec-tors (i.e., of types [][][]\T1/pcr/m
/n/10 double[][][] []\T1/ptm/m/n/10 (class
[338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 24143--24143
 []\T1/pcr/m/n/9 zN <- c(complex(real = NA , imaginary =  r ), complex(real =  
r , imaginary = NA ),[] 
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 []        \T1/pcr/m/n/9 complex(real =  r , imaginary = NaN), complex(real = N
aN, imaginary =  r ))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 24147--24147
 []\T1/pcr/m/n/9 zM ##--> many "NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s" (= 1) and th
e four non-NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s (3 different ones, at 7,9,10)[] 
[350] [351]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 24244--24244
 []\T1/pcr/m/n/9 match.arg(c("a", ""),  c("", NA, "bb", "abc"), several.ok=TRUE
) # |-->  "abc"[] 
Underfull \hbox (badness 1655) in paragraph at lines 24278--24282
[]\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion 
(also known as a `clo-sure'):
[352] [353] [354] [355]
Underfull \hbox (badness 1292) in paragraph at lines 24529--24532
[]\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross \T1/ptm/m/n/10 prod-ucts, []
[][]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcro
ssprod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able.
[356] [357] [358] [359] [360] [361] [362] [363] [364]
Underfull \hbox (badness 1484) in paragraph at lines 25150--25158
[]\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less 
the OS's de-fault has been
Underfull \hbox (badness 1152) in paragraph at lines 25150--25158
\T1/ptm/m/n/10 changed to al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 http
s : / / docs . microsoft . com / en-[]gb /
[365] [366]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 25224--25224
 []      \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y =
 all,[] 
[367] [368] [369] [370] [371] [372] [373] [374]
Underfull \hbox (badness 1448) in paragraph at lines 25775--25783
[]\T1/pcr/m/n/10 anyNA(recursive = FALSE) []\T1/ptm/m/n/10 works the same way a
s []\T1/pcr/m/n/10 is.na[]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 anyNA(recursive =
[375]
Underfull \hbox (badness 3849) in paragraph at lines 25890--25895
[]\T1/pcr/m/n/10 as.name []\T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter-
nally to a char-ac-ter vec-tor (so meth-ods for
[376]
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[]\T1/ptm/m/n/10 For an [][][]\T1/pcr/m/n/10 environment[][][] env[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r
e-spond-ing list,
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\T1/ptm/m/n/10 i.e., []\T1/pcr/m/n/10 names(as.list(env, all.names = TRUE)) []\
T1/ptm/m/n/10 which are also given by [][][]\T1/pcr/m/n/10 ls[][][](env,
Underfull \hbox (badness 3148) in paragraph at lines 25967--25973
\T1/pcr/m/n/10 all.names = TRUE, sorted = FALSE)[]\T1/ptm/m/n/10 . If the en-vi
-ron-ment is used as a hash ta-ble,
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Underfull \hbox (badness 2237) in paragraph at lines 26130--26132
[]\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1
0 c("bytes", "chars",
[380] [381] [382]
Underfull \hbox (badness 6188) in paragraph at lines 26357--26360
[]\T1/ptm/m/n/10 optional [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 e
ven-tu-ally to be passed to []\T1/pcr/m/n/10 print()[]\T1/ptm/m/n/10 , used by
[383] [384] [385]
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\T1/ptm/m/n/10 tion []\T1/pcr/m/n/10 GetFinalPathNameByHandle []\T1/ptm/m/n/10 
and in case of an er-ror (such as in-suf-fi-cient per-
[386] [387] [388] [389]
Underfull \hbox (badness 2197) in paragraph at lines 26863--26867
[]\T1/ptm/m/n/10 Loading a names-pace should where pos-si-ble be silent, with s
tartup mes-sages given by
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[]\T1/pcr/m/n/10 .onAttach[]\T1/ptm/m/n/10 . These mes-sages (and any es-sen-ti
al ones from []\T1/pcr/m/n/10 .onLoad[]\T1/ptm/m/n/10 ) should use
[390]
Underfull \hbox (badness 2846) in paragraph at lines 26877--26881
[]\T1/ptm/m/n/10 Uses of []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 with ar-gu-m
ent []\T1/pcr/m/n/10 help []\T1/ptm/m/n/10 to dis-play ba-sic in-for-ma-tion ab
out the pack-
Underfull \hbox (badness 1990) in paragraph at lines 26877--26881
\T1/ptm/m/n/10 age should use []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 on the c
om-puted pack-age in-for-ma-tion ob-ject and pass this to
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 []\T1/pcr/m/n/10 attachNamespace(ns, pos = 2L, depends = NULL, exclude, includ
e.only) 
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 []              \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk
gs"))[] 
[391]
Underfull \hbox (badness 10000) in paragraph at lines 26972--26978
[]\T1/pcr/m/n/10 loadNamespace []\T1/ptm/m/n/10 does not at-tach the name space
 it loads to the search path.
Underfull \hbox (badness 1168) in paragraph at lines 26972--26978
[]\T1/pcr/m/n/10 attachNamespace []\T1/ptm/m/n/10 can be used to at-tach a fram
e con-tain-ing the ex-ported val-ues of a
Underfull \hbox (badness 10000) in paragraph at lines 26985--26987
[]\T1/pcr/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but
 more ef-fi-cient than []\T1/pcr/m/n/10 pkg %in%
[392]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27052--27052
 [] \T1/pcr/m/n/9 ## The string "foo" and the symbol \TS1/pcr/m/n/9 '\T1/pcr/m/
n/9 foo\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 can be used interchangably here:[] 
[393] [394] [395]
Underfull \hbox (badness 8189) in paragraph at lines 27251--27257
[]\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 is.numeric []\T1/ptm/
m/n/10 re-turns []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 if its ar-gu-ment is of 
[][]mode[][][]
[396] [397] [398]
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\T1/ptm/m/n/10 ject as ob-tained by [][][]\T1/pcr/m/n/10 R.version[][][][]\T1/p
tm/m/n/10 . For []\T1/pcr/m/n/10 as.numeric_version []\T1/ptm/m/n/10 and
[399] [400] [401] [402] [403]
Underfull \hbox (badness 1603) in paragraph at lines 27762--27764
[]\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a
re con-verted by
[404]
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[]\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/
10 R \T1/ptm/m/n/10 starts up. Ini-
[405] [406] [407]
Underfull \hbox (badness 3271) in paragraph at lines 28117--28120
[]\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men
t vari-able
[408] [409] [410]
Underfull \hbox (badness 3138) in paragraph at lines 28425--28431
[]\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/pcr/
m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 28425--28431
\T1/ptm/m/n/10 e.g. the de-fault `[]\T1/pcr/m/n/10 "https://bioconductor.org"[]
\T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror
Underfull \hbox (badness 2088) in paragraph at lines 28425--28431
\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 "https://bioconductor.statistik.tu-dortmund.de
"[]\T1/ptm/m/n/10 '. Can be set by
Underfull \hbox (badness 1389) in paragraph at lines 28464--28466
[]\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na
l HTTP server, see
[411]
Underfull \hbox (badness 10000) in paragraph at lines 28495--28501
[]\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by
Underfull \hbox (badness 3826) in paragraph at lines 28510--28515
[]\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/
m/n/10 (and in-di-rectly
Underfull \hbox (badness 1009) in paragraph at lines 28528--28531
[]\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/pcr/m/n/10 create.p
ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/pcr/m/n/10 bug.report[][][] []\T
1/ptm/m/n/10 and
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[]\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle
d -- see
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[]\T1/pcr/m/n/10 "source" []\T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN 
ma-cOS
Underfull \hbox (badness 10000) in paragraph at lines 28552--28558
\T1/ptm/m/n/10 build), []\T1/pcr/m/n/10 "mac.binary" []\T1/ptm/m/n/10 and []\T1
/pcr/m/n/10 "both" []\T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS
Underfull \hbox (badness 10000) in paragraph at lines 28552--28558
\T1/ptm/m/n/10 builds). ([]\T1/pcr/m/n/10 "mac.binary.el-capitan"[]\T1/ptm/m/n/
10 , []\T1/pcr/m/n/10 "mac.binary.mavericks"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 5091) in paragraph at lines 28552--28558
[]\T1/pcr/m/n/10 "mac.binary.leopard" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "ma
c.binary.universal" []\T1/ptm/m/n/10 are no longer
[412] [413]
Underfull \vbox (badness 10000) has occurred while \output is active [414]
[415] [416]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28933--28933
 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec,
 300X faster[] 
Underfull \vbox (badness 10000) has occurred while \output is active [417]
Underfull \hbox (badness 10000) in paragraph at lines 28946--28950
[]\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex.
y)] = FUN(X[arrayindex.x],
[418] [419]
Underfull \hbox (badness 1210) in paragraph at lines 29093--29096
[]\T1/pcr/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 str2la
ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/pcr/m/n/10 parse(tex
t=s,
[420] [421]
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 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) 
"Syntax error.")[] 
[422]
Underfull \hbox (badness 1478) in paragraph at lines 29318--29323
\T1/ptm/m/n/10 zero-length [][][]\T1/pcr/m/n/10 character[][][](0)[]\T1/ptm/m/n
/10 . Note that when []\T1/pcr/m/n/10 collapse []\T1/ptm/m/n/10 is a string,
[423]
Underfull \hbox (badness 7133) in paragraph at lines 29377--29383
[][][]\T1/pcr/m/n/10 toString[][][] []\T1/ptm/m/n/10 typ-i-cally calls []\T1/pc
r/m/n/10 paste(*, collapse=", ")[]\T1/ptm/m/n/10 . String ma-nip-u-la-tion with
Overfull \hbox (42.18039pt too wide) in paragraph at lines 29399--29399
 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as
 the longest input.[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 29411--29411
 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha
t you wanted[] 
Overfull \hbox (17.87582pt too wide) in paragraph at lines 29424--29424
 []\T1/pcr/m/n/9 ## zero length arguments recycled as \TS1/cmtt/m/n/9 `\T1/pcr/
m/n/9 ""\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 -- NB: \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 {
}\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 <==> character(0)  here[] 
[424]
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 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 recycle0 = TRUE\TS1/pcr/m/n/9
 ' \T1/pcr/m/n/9 allows standard vectorized behaviour, i.e., zero-length[] 
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 []\T1/pcr/m/n/9 ##                   recycling resulting in zero-length result
 character(0):[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 29431--29431
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- not so good!") # ->  "..
 value is  -- not .."[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 29432--29432
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0=
TRUE) # -> character(0)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 29435--29435
 []\T1/pcr/m/n/9 paste("foo", {}, "bar", collapse = "|")                  # |--
>  "foo  bar"[] 
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 []\T1/pcr/m/n/9 ## If all arguments are empty (and collapse a string),   ""  r
esults always[] 
[425] [426] [427]
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 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow()  # same as nrow(subset(mt
cars, cyl == 4))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 29642--29642
 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so 
is not evaluated[] 
[428]
Underfull \hbox (badness 1360) in paragraph at lines 29697--29701
[]\T1/ptm/m/n/10 All other []\T1/pcr/m/n/10 type[]\T1/ptm/m/n/10 s give a warn-
ing or an er-ror; us-ing, e.g., []\T1/pcr/m/n/10 type =
[429] [430] [431] [432]
Underfull \hbox (badness 2277) in paragraph at lines 30009--30014
\T1/ptm/m/n/10 i.e., strictly in-clude the bounds of []\T1/pcr/m/n/10 x[]\T1/pt
m/m/n/10 . New from \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0, al-low-ing
[433] [434]
Underfull \hbox (badness 1701) in paragraph at lines 30125--30129
[]\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/cmtt/m/n/10 `\T1/
pcr/m/n/10 name\TS1/cmtt/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\
T1/pcr/m/n/10 get[][][](name, envir =
[435]
Underfull \hbox (badness 1796) in paragraph at lines 30193--30196
[]\T1/ptm/m/n/10 character string (or []\T1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 ) i
n-di-cat-ing [][][]\T1/pcr/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed 
out-put, see
[436] [437] [438] [439]
Underfull \hbox (badness 10000) in paragraph at lines 30404--30407
[]\T1/ptm/m/n/10 Option []\T1/pcr/m/n/10 width []\T1/ptm/m/n/10 con-trols the p
rint-ing of vec-tors, ma-tri-ces and ar-rays, and op-tion
[440]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 30475--30475
 []\T1/pcr/m/n/9 (x <- 2^seq(-8, 30, by=1/4)) # auto-prints; by default all in 
"exponential" format[] 
[441] [442] [443] [444] [445] [446] [447]
Underfull \hbox (badness 2961) in paragraph at lines 30956--30959
[]\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n
etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / /
[448] [449]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 31105--31105
 []           \T1/pcr/m/n/9 c1 = rep(c(1,0,0), 2), c2 = rep(c(0,1,0), 2), c3 = 
rep(c(0,0,1),2))[] 
[450] [451] [452] [453]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 31398--31398
 []\T1/pcr/m/n/9 (nn <- "\u0126\u0119\u1114\u022d\u2001\u03e2\u0954\u0f3f\u13d3
\u147b\u203c")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 31409--31409
 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\
U147b\U203c"[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 31415--31415
 []\T1/pcr/m/n/9 ## https://cran.r-project.org/doc/manuals/r-release/R-lang.htm
l#Literal-constants[] 
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 []\T1/pcr/m/n/9 ## nul characters (for terminating strings in C) are not allow
ed (parse errors)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [454]
[455]
Underfull \hbox (badness 7415) in paragraph at lines 31518--31524
[]\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R.v
ersion$os []\T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use
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 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu
l bottom-right note[] 
[456]
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 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind =
 NULL)[] 
[457] [458]
Underfull \hbox (badness 3713) in paragraph at lines 31731--31742
[]\T1/pcr/m/n/10 normal.kind []\T1/ptm/m/n/10 can be []\T1/pcr/m/n/10 "Kinderma
n-Ramage"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Buggy Kinderman-Ramage" []\T1/ptm
/m/n/10 (not
[459]
Underfull \hbox (badness 1248) in paragraph at lines 31883--31890
\T1/ptm/m/n/10 uni-form pseudo-random num-ber gen-er-a-tor, \T1/ptm/m/it/10 ACM
 Trans-ac-tions on Mod-el-ing and Com-puter
Underfull \hbox (badness 10000) in paragraph at lines 31883--31890
\T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 http : / / www . math . sci . hirosh
ima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS /
[460] [461]
Underfull \hbox (badness 1533) in paragraph at lines 32001--32004
[]\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca
n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the
[462] [463] [464]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 32154--32154
 []     \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m
ax", "min"))[] 
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[]\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/pcr/m/n/10 N
A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in
[465] [466]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32316--32316
 []\T1/pcr/m/n/9 rapply(X, function(x) x, how = "replace") -> X.; stopifnot(ide
ntical(X, X.))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 32318--32318
 []\T1/pcr/m/n/9 rapply(X, deparse, control = "all") # passing extras. argument
 of deparse()[] 
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 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h
ow = "list")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32320--32320
 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32321--32321
 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character",                      h
ow = "unlist")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32328--32328
 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
[467] [468] [469] [470] [471]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 32636--32636
 []\T1/pcr/m/n/9 ## Bit representation  [ sign | exponent | mantissa ] of doubl
e prec numbers :[] 
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 []\T1/pcr/m/n/9 bitC <- function(x) noquote(vapply(as.double(x), function(x) {
 # split one double[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 32648--32648
 []\T1/pcr/m/n/9 d2bI <- function(x) vapply(as.double(x), function(x) intToBits
(numToInts(x)), raw(64L))[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 32649--32649
 []\T1/pcr/m/n/9 d2b  <- function(x) vapply(as.double(x), function(x)          
 numToBits(x) , raw(64L))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [472]
Underfull \hbox (badness 6300) in paragraph at lines 32718--32720
[]\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr
it-ing R Ex-ten-sions' man-ual:
[473]
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[]\T1/ptm/m/n/10 Either an ob-ject whose mode will give the mode of the vec-tor
 to
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\T1/ptm/m/n/10 be read, or a char-ac-ter vec-tor of length one de-scrib-ing the
 mode:
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\T1/ptm/m/n/10 one of []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/pcr/m/
n/10 "double"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 "int"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/
10 ,
[474] [475] [476] [477] [478] [479] [480] [481]
Underfull \hbox (badness 2080) in paragraph at lines 33285--33295
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 infoRDS[]\T1/ptm/m/n/10 , an \T1/phv/m/n/
10 R \T1/ptm/m/n/10 list with el-e-ments []\T1/pcr/m/n/10 version []\T1/ptm/m/n
/10 (ver-sion num-ber, cur-rently 2 or 3),
Overfull \hbox (4.38043pt too wide) in paragraph at lines 33319--33319
 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene
d as needed.[] 
[482] [483] [484] [485] [486] [487] [488]
Underfull \hbox (badness 7558) in paragraph at lines 33841--33845
[]\T1/pcr/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 gregexpr []\T1/p
tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g.,
Underfull \hbox (badness 1968) in paragraph at lines 33851--33853
[]\T1/ptm/m/n/10 This help page is based on the TRE doc-u-men-ta-tion and the P
OSIX stan-dard, and the
[489]
Underfull \hbox (badness 10000) in paragraph at lines 33862--33864
[]\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/pcr/m/n/10 https : / / 
pubs . opengroup . org / onlinepubs /
Underfull \hbox (badness 1975) in paragraph at lines 33865--33869
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/pc
r/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/pcr/m
/n/10 https : / / www .
[490] [491] [492] [493] [494]
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 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3)         # length 24, 3 complete 
replications[] 
[495]
Underfull \hbox (badness 10000) in paragraph at lines 34308--34312
[][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] []
[]NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple
x_[][][]
[496] [497] [498]
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[]\T1/pcr/m/n/10 signif []\T1/ptm/m/n/10 rounds the val-ues in its first ar-gu-
ment to the spec-i-fied num-ber of \T1/ptm/m/it/10 sig-nif-i-cant
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\T1/ptm/m/n/10 dig-its. Hence, for []\T1/pcr/m/n/10 numeric x[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 signif(x, dig) []\T1/ptm/m/n/10 is the same as []\T1/pcr/m/n/
10 round(x, dig -
[499] [500]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 34671--34671
 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"))[] 
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 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
[501]
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 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
[502] [503] [504] [505] [506] [507]
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 []           \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) 
&& size <= n/2))[] 
[508] [509] [510] [511] [512] [513] [514]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 35566--35566
 []     \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul =
 FALSE)[] 
[515]
Underfull \hbox (badness 1158) in paragraph at lines 35670--35675
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 
1, it ap-plies to all fields; oth-er-wise, if
[516] [517]
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 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data
", sep = "\n") 
[518] [519] [520] [521]
Underfull \hbox (badness 4752) in paragraph at lines 36115--36118
[]\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence []\T1/pcr/
m/n/10 1, 2, ..., length(along.with)[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 5563) in paragraph at lines 36119--36125
[]\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence []\T1/pcr/m/n/10 1, 2
, ..., length(from) []\T1/ptm/m/n/10 (as if ar-gu-ment
[522] [523] [524] [525] [526] [527] [528] [529] [530]
Underfull \hbox (badness 6094) in paragraph at lines 36705--36709
[]\T1/pcr/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in-
te-ger con-nec-tion de-scrip-tors for use
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\T1/ptm/m/n/10 with []\T1/pcr/m/n/10 getConnection[]\T1/ptm/m/n/10 , cor-re-spo
nd-ing to the row names of the ta-ble re-turned by
[531]
Underfull \hbox (badness 3826) in paragraph at lines 36796--36807
[]\T1/ptm/m/n/10 In Win-dows, com-mand line in-ter-pre-ta-tion is done by the a
p-pli-ca-tion as well as the
Underfull \hbox (badness 3492) in paragraph at lines 36796--36807
\T1/ptm/m/n/10 shell. It may de-pend on the com-piler used: Mi-crosoft's rules 
for the C run-time
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\T1/ptm/m/n/10 are given at [][]$\T1/pcr/m/n/10 https : / / learn . microsoft .
 com / en-[]us / cpp / c-[]language /
Underfull \hbox (badness 1635) in paragraph at lines 36796--36807
\T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][
]\T1/ptm/m/n/10 . It may de-pend on the
[532] [533] [534] [535] [536] [537] [538] [539]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 37348--37348
 []         \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index
.return = FALSE)[] 
[540] [541] [542] [543]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 37639--37639
 []\T1/pcr/m/n/9 sort_by.data.frame(mtcars, ~ list(am, -mpg)) |> subset(select 
= c(am, mpg))[] 
[544]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 37677--37677
 []              \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length 
= Inf,[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 37679--37679
 []              \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes"
, "keepNA"),[] 
[545]
Underfull \hbox (badness 4954) in paragraph at lines 37723--37729
[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/
pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T
1/ptm/m/n/10 , see also
Underfull \hbox (badness 5050) in paragraph at lines 37723--37729
[][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \
T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to
[546]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 37831--37831
 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments
 should print:)[] 
[547] [548] [549] [550] [551]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 38187--38187
 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m
/n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] 
[552]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 38202--38202
 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is
 being added[] 
[553] [554]
Underfull \hbox (badness 10000) in paragraph at lines 38428--38430
[][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919
799 / functions /
[555] [556] [557] [558]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 38654--38654
 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un
known") 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 38655--38655
 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile =
 FALSE)[] 
[559] [560] [561] [562]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 38985--38985
 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS
E, nowadays often three 
[563] [564]
Underfull \hbox (badness 6110) in paragraph at lines 39081--39091
[]\T1/ptm/m/n/10 A func-tion []\T1/pcr/m/n/10 .First []\T1/ptm/m/n/10 (and [][]
[]\T1/pcr/m/n/10 .Last[][][][]\T1/ptm/m/n/10 ) can be de-fined in ap-pro-pri-at
e `\T1/pcr/m/n/10 .Rprofile\T1/ptm/m/n/10 ' or
Underfull \hbox (badness 2635) in paragraph at lines 39081--39091
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' files or have been
 saved in `\T1/pcr/m/n/10 .RData\T1/ptm/m/n/10 '. If you want a dif-fer-ent
Underfull \hbox (badness 1237) in paragraph at lines 39081--39091
\T1/ptm/m/n/10 set of pack-ages than the de-fault ones when you start, in-sert 
a call to [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 in the
Underfull \hbox (badness 1231) in paragraph at lines 39081--39091
\T1/pcr/m/n/10 = character()) []\T1/ptm/m/n/10 will at-tach no ex-tra pack-ages
 on startup (only the \T1/ptm/b/n/10 base \T1/ptm/m/n/10 pack-age) (or
Underfull \hbox (badness 1112) in paragraph at lines 39081--39091
\T1/ptm/m/n/10 set []\T1/pcr/m/n/10 R_DEFAULT_PACKAGES=NULL []\T1/ptm/m/n/10 as
 an en-vi-ron-ment vari-able be-fore run-ning \T1/phv/m/n/10 R\T1/ptm/m/n/10 ).
 Us-ing
Underfull \hbox (badness 10000) in paragraph at lines 39137--39143
[]\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file
s `\T1/pcr/m/n/10 Renviron.site\T1/ptm/m/n/10 '
Underfull \hbox (badness 10000) in paragraph at lines 39137--39143
\T1/ptm/m/n/10 and `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for
 first in architecture-specific di-rec-to-ries,
Underfull \hbox (badness 1496) in paragraph at lines 39137--39143
\T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/i386/R
environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/pcr/m/n/10 .Renviron.i386\T1/ptm/m/
n/10 ' will be
[565]
Underfull \hbox (badness 1460) in paragraph at lines 39152--39159
[]\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is 
also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/Renviron\T1/pt
m/m/n/10 ' which is read
Underfull \hbox (badness 1038) in paragraph at lines 39152--39159
\T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron-
ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the
Underfull \hbox (badness 2573) in paragraph at lines 39152--39159
\T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i
n site or user en-vi-ron-ment
Overfull \hbox (4.38043pt too wide) in paragraph at lines 39212--39212
 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba
ckslashes in[] 
[566] [567]
Underfull \hbox (badness 5985) in paragraph at lines 39299--39302
[]\T1/ptm/m/n/10 The de-fault han-dler stores the er-ror mes-sage in a buffer; 
it can be re-trieved by
Underfull \hbox (badness 1460) in paragraph at lines 39299--39302
[]\T1/pcr/m/n/10 geterrmessage()[]\T1/ptm/m/n/10 . It also stores a trace of th
e call stack that can be re-trieved by
[568]
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[]\T1/ptm/m/n/10 alternative to []\T1/pcr/m/n/10 exprs []\T1/ptm/m/n/10 or []\T
1/pcr/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an
[569]
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 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e
xprs = exprs))) 
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 []\T1/pcr/m/n/9 stopifnot(all.equal(pi, 3.141593),  2 < 2, (1:10 < 12), "a" < 
"b") |> try()[] 
[570]
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 []\T1/pcr/m/n/9 stopifnot(all.equal(rep(list(pi),4), list(3.1, 3.14, 3.141, 3.
1415))) |> try()[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 39497--39497
 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 '   \T1/pcr/m/n/9 {Yes, learn how to use do.c
all(substitute, ...) in a powerful manner !!}[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 39499--39499
 []\T1/pcr/m/n/9 bdy        <- do.call(substitute, list(bdy,   list(stopifnot =
 quote(warnifnot))))[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 39500--39500
 []\T1/pcr/m/n/9 bdy[[N-1]] <- do.call(substitute, list(bdy[[N-1]], list(stop =
 quote(warning))))[] 
[571]
Underfull \hbox (badness 1436) in paragraph at lines 39560--39564
[]\T1/ptm/m/n/10 integer de-ter-min-ing the []\T1/pcr/m/n/10 format()[]\T1/ptm/
m/n/10 ing of sec-onds when needed. Note
[572] [573] [574] [575] [576]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 39951--39951
 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec 
= NULL ("= 0")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 39980--39980
 []\T1/pcr/m/n/9 format(s1 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 19
78-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 day
\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ,   len =  7), "%a")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 39981--39981
 []\T1/pcr/m/n/9 format(s2 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 20
00-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 mon
th\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 12), "%b")[] 
Underfull \vbox (badness 10000) has occurred while \output is active [577]
[578]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 40093--40093
 []            \T1/pcr/m/n/10 add the string to the left of the match to the ou
tput.[] 
[579] [580] [581] [582]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 40363--40363
 []        \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p
refix)[] 
[583]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 40407--40407
 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll
apse = "\n")[] 
[584] [585] [586] [587] [588] [589] [590]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 40854--40854
 []\T1/pcr/m/n/9 ## In fact, you can pass vectors into several arguments, and e
verything gets added.[] 
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 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also
 missing, ....[] 
[591]
Underfull \hbox (badness 10000) in paragraph at lines 40908--40915
[]\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][][]\T1/pcr/m/n/
10 signif[][][]() []\T1/ptm/m/n/10 (for
Underfull \hbox (badness 10000) in paragraph at lines 40908--40915
[]\T1/pcr/m/n/10 summary.default[]\T1/ptm/m/n/10 ) or [][][]\T1/pcr/m/n/10 form
at[][][]() []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 summary.data.frame[]\T1/ptm/m
/n/10 ).
[592]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 40961--40961
 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau
lt precision 
[593] [594] [595] [596]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 41275--41275
 []    \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw
ise: last"),"\n")[] 
[597] [598] [599] [600]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 41485--41485
 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, 
macOS, FreeBSD:[] 
Underfull \hbox (badness 2293) in paragraph at lines 41515--41521
[]\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild
-cards in file paths. For pre-cise de-
Underfull \hbox (badness 1237) in paragraph at lines 41515--41521
\T1/ptm/m/n/10 tails of wild-cards ex-pan-sion, see your sys-tem's doc-u-men-ta
-tion on the []\T1/pcr/m/n/10 glob []\T1/ptm/m/n/10 sys-tem call.
[601]
Underfull \hbox (badness 4792) in paragraph at lines 41533--41538
[]\T1/ptm/m/n/10 If a file-name starts with []\T1/pcr/m/n/10 . []\T1/ptm/m/n/10
 this may need to be matched ex-plic-itly: for ex-am-ple
Underfull \hbox (badness 1107) in paragraph at lines 41533--41538
[]\T1/pcr/m/n/10 Sys.glob("*.RData") []\T1/ptm/m/n/10 may or may not match `\T1
/pcr/m/n/10 .RData\T1/ptm/m/n/10 ' but will not usu-ally match
[602] [603] [604] [605]
Underfull \hbox (badness 10000) in paragraph at lines 41821--41825
[]\T1/pcr/m/n/10 sys.status() []\T1/ptm/m/n/10 re-turns a list with com-po-nent
s []\T1/pcr/m/n/10 sys.calls[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sys.parents []\
T1/ptm/m/n/10 and
Underfull \hbox (badness 1584) in paragraph at lines 41836--41839
[]\T1/pcr/m/n/10 sys.call []\T1/ptm/m/n/10 re-turns a call, []\T1/pcr/m/n/10 sy
s.function []\T1/ptm/m/n/10 a func-tion def-i-ni-tion, and []\T1/pcr/m/n/10 sys
.frame []\T1/ptm/m/n/10 and
[606] [607]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 41974--41974
 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths
), keepNA=TRUE))[] 
[608]
Overfull \hbox (19.22812pt too wide) in paragraph at lines 42054--42054
 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123))  # \TS1/cmtt
/m/n/9 `\T1/pcr/m/n/9 A+C\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 could also be used 
[609] [610] [611]
Underfull \hbox (badness 1082) in paragraph at lines 42199--42202
[]\T1/ptm/m/n/10 logical. If []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions
 keep their source in-clud-ing com-ments, see
Underfull \hbox (badness 10000) in paragraph at lines 42226--42228
[][][]\T1/pcr/m/n/10 source[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 lo
adNamespace[][][] []\T1/ptm/m/n/10 which is called from [][][]\T1/pcr/m/n/10 li
brary[][][](.) []\T1/ptm/m/n/10 and uses
[612] [613] [614]
Underfull \hbox (badness 1038) in paragraph at lines 42393--42396
[]\T1/ptm/m/n/10 a log-i-cal (not []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 ) in-di-c
at-ing whether mes-sages writ-ten to `\T1/pcr/m/n/10 stdout\T1/ptm/m/n/10 ' or
[615] [616] [617] [618] [619] [620]
Underfull \hbox (badness 1442) in paragraph at lines 42777--42781
\T1/ptm/m/n/10 con-sider it to be piped or redi-rected: []\T1/pcr/m/n/10 stdout
 = TRUE []\T1/ptm/m/n/10 uses a pipe whereas []\T1/pcr/m/n/10 stdout =
[621] [622] [623]
Underfull \hbox (badness 4096) in paragraph at lines 43035--43038
[]\T1/ptm/m/n/10 Use [][][]\T1/pcr/m/n/10 ftable[][][] []\T1/ptm/m/n/10 for pri
nt-ing (and more) of mul-ti-di-men-sional ta-bles. [][][]\T1/pcr/m/n/10 margin.
table[][][][]\T1/ptm/m/n/10 ,
[624] [625]
Underfull \hbox (badness 7888) in paragraph at lines 43150--43154
[]\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/pcr/m/n/10 bin []\T1/ptm/m/n/10 can
 have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/pcr/
m/n/10 length(bin) >
[626] [627] [628] [629]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 43412--43412
 []            \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1"
, "2"), c("A", "B")))),[] 
Overfull \hbox (30.0281pt too wide) in paragraph at lines 43414--43414
 []            \T1/pcr/m/n/9 array(list(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 2\TS1/cm
tt/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[]
 
Overfull \hbox (55.67578pt too wide) in paragraph at lines 43416--43416
 []                 \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 4\TS1/cmtt/m/n/9 ` \T1/pcr/m
/n/9 = NULL, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 5\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 = 
NULL), dim=4, dimnames=list(as.character(2:5)))))[] 
Underfull \hbox (badness 10000) in paragraph at lines 43429--43431
[]\T1/pcr/m/n/10 removeTaskCallback []\T1/ptm/m/n/10 un-registers a func-tion t
hat was reg-is-tered ear-lier via
[630]
Underfull \hbox (badness 10000) in paragraph at lines 43509--43512
[][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [
][]$https : / / developer .
[631] [632]
Underfull \hbox (badness 3872) in paragraph at lines 43627--43630
[]\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call
-backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer .
[633]
Underfull \hbox (badness 5475) in paragraph at lines 43693--43697
[][][]\T1/pcr/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 taskCallback
Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 https : / /
[634] [635] [636] [637] [638] [639]
Underfull \hbox (badness 1655) in paragraph at lines 44114--44121
\T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[]
\T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1
/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ',
Underfull \hbox (badness 2253) in paragraph at lines 44122--44127
[]\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se
e the ex-am-ples for typ-i-cal cases. It may
Underfull \hbox (badness 1655) in paragraph at lines 44122--44127
\T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , 
some-thing like `[]\T1/pcr/m/n/10 "2023a"[]\T1/ptm/m/n/10 '. (It does on sys-te
ms us-ing
[640]
Underfull \hbox (badness 4467) in paragraph at lines 44176--44185
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-
turns the time-zone names known to the cur-rently se-
Underfull \hbox (badness 3954) in paragraph at lines 44176--44185
\T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t
he file sys-tem varies,
[641]
Underfull \hbox (badness 1337) in paragraph at lines 44273--44281
\T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de
r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 /
usr/local/etc\T1/ptm/m/n/10 ' or
Underfull \hbox (badness 10000) in paragraph at lines 44282--44285
[]\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym
-link tar-get name of
[642]
Underfull \hbox (badness 3460) in paragraph at lines 44341--44344
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][
] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / data . iana . org /
Underfull \hbox (badness 4429) in paragraph at lines 44345--44347
[][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h
tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol-
Overfull \hbox (31.3804pt too wide) in paragraph at lines 44354--44354
 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET",
 "Eire", ..., but[] 
[643] [644] [645] [646] [647]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 44695--44695
 []\T1/pcr/m/n/9 trace(pt, tracer = quote(cat(sprintf("tracing pt(*, ncp = %.15
g)\n", ncp))),[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 44697--44697
 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL)  ##--> showing the ncp
 root finding:[] 
[648] [649]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 44794--44794
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 44796--44796
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
[650] [651] [652]
Underfull \hbox (badness 6542) in paragraph at lines 45070--45072
[]\T1/pcr/m/n/10 cospi(x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sinpi(x)[]\T1/ptm/
m/n/10 , and []\T1/pcr/m/n/10 tanpi(x)[]\T1/ptm/m/n/10 , com-pute []\T1/pcr/m/n
/10 cos(pi*x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sin(pi*x)[]\T1/ptm/m/n/10 , an
d
[653] [654]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 45189--45189
 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[
 \t\r\n]") 
[655]
Underfull \hbox (badness 1708) in paragraph at lines 45257--45265
[]\T1/pcr/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any
 er-rors that oc-cur dur-ing the eval-u-a-tion. If
Underfull \hbox (badness 3713) in paragraph at lines 45257--45265
\T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][
][]\T1/pcr/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less
[656]
Underfull \hbox (badness 4859) in paragraph at lines 45297--45302
[][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 for set-ting er-ror han-dle
rs and sup-press-ing the print-ing of er-ror mes-sages;
[657]
Underfull \hbox (badness 3895) in paragraph at lines 45359--45372
[]\T1/ptm/m/n/10 A char-ac-ter string. The pos-si-ble val-ues are listed in the
 struc-ture []\T1/pcr/m/n/10 TypeTable []\T1/ptm/m/n/10 in
Underfull \hbox (badness 1303) in paragraph at lines 45359--45372
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/main/util.c\T1/ptm/m/n/10 '. Cur-rent val-ue
s are the vec-tor types []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/
m/n/10 "integer"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 2452) in paragraph at lines 45359--45372
[]\T1/pcr/m/n/10 "promise"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "object"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "language"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "char"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "..."[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "a
ny"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expression"[]\T1/ptm/m/n/10 ,
[658] [659] [660] [661] [662]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 45708--45708
 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp
ression(1+x))[] 
[663] [664] [665]
Underfull \hbox (badness 1137) in paragraph at lines 45847--45854
[]\T1/ptm/m/n/10 When a func-tion call-ing []\T1/pcr/m/n/10 UseMethod("fun") []
\T1/ptm/m/n/10 is ap-plied to an ob-ject with class vec-tor
[666] [667] [668] [669] [670]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46226--46226
 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local
es and fonts[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 46235--46235
 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little-
endian platforms[] 
[671]
Underfull \hbox (badness 1721) in paragraph at lines 46297--46314
[][][]\T1/pcr/m/n/10 file.rename[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 f
ile.symlink[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 dir.create[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dir.exists[][][][]\T1/ptm/m/n/10 , [][][]\
T1/pcr/m/n/10 normalizePath[][][][]\T1/ptm/m/n/10 ,
[672]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 46399--46399
 []\T1/pcr/m/n/9 try( substr(x, 1,1) ) # gives \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 in
valid multibyte string\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 error in a UTF-8 locale[] 
[673]
Underfull \hbox (badness 1803) in paragraph at lines 46462--46465
[]\T1/ptm/m/n/10 The atomic modes are []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric" []\
T1/ptm/m/n/10 (syn-onym []\T1/pcr/m/n/10 "double"[]\T1/ptm/m/n/10 ),
Underfull \hbox (badness 3471) in paragraph at lines 46466--46472
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 mode = "any"[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 is.vector []\T1/ptm/m/n/10 may re-turn []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/
n/10 for the atomic modes, [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 and
[674] [675] [676]
Underfull \hbox (badness 1014) in paragraph at lines 46694--46697
[]\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me
-di-ately, even if
[677] [678]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 46803--46803
 []      \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes
sages:\n"),[] 
[679]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46880--46880
 []\T1/pcr/m/n/9 ## at the end prints all three warnings, from the \TS1/pcr/m/n
/9 '\T1/pcr/m/n/9 option(warn = 0)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 above[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 46888--46888
 []\T1/pcr/m/n/9 x <- 1:36; for(n in 1:13) for(m in 1:12) A <- matrix(x, n,m) #
 There were 105 warnings ...[] 
[680]
Underfull \hbox (badness 1783) in paragraph at lines 46953--46955
[]\T1/pcr/m/n/10 weekdays []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 months []\T1/pt
m/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e.,
[681]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 46983--46983
 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w
eek, yr}), ... :[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 46995--46995
 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Even simpler:  Date -> Matrix
 - dropping time info {sec,min,hour, isdst}[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 46998--46998
 []\T1/pcr/m/n/9 d2mat(seq(as.Date("2000-02-02"), by=1, length.out=30)) # has R
 1.0.0\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s release date[] 
[682]
Underfull \hbox (badness 10000) in paragraph at lines 47060--47065
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 arr.ind == TRUE []\T1/ptm/m/n/10 and []\T1
/pcr/m/n/10 x []\T1/ptm/m/n/10 is an [][][]\T1/pcr/m/n/10 array[][][] []\T1/ptm
/m/n/10 (has a [][][]\T1/pcr/m/n/10 dim[][][] []\T1/ptm/m/n/10 at-tribute), the
 re-sult is
Underfull \hbox (badness 2564) in paragraph at lines 47060--47065
[]\T1/pcr/m/n/10 arrayInd(which(x), dim(x), dimnames(x))[]\T1/ptm/m/n/10 , name
ly a ma-trix whose rows each
[683]
Underfull \hbox (badness 2818) in paragraph at lines 47158--47164
[]\T1/ptm/m/n/10 For a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 vec-
tor []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with both []\T1/pcr/m/n/10 FALSE []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 val-ues, []\T1/pcr/m/n/10
 which.min(x) []\T1/ptm/m/n/10 and
[684]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 47193--47193
 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is
 at least one:[] 
[685] [686] [687] [688] [689] [690] [691]
Underfull \hbox (badness 2846) in paragraph at lines 47688--47692
[]\T1/pcr/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren
tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas
[692]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 47728--47728
 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char
acter vector[] 
Underfull \hbox (badness 3209) in paragraph at lines 47749--47753
[]\T1/pcr/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da
rd' reg-exps, in-clud-ing el-e-ments named
[693]) (./compiler-pkg.tex [694]
Chapter 2.
[695]
Underfull \hbox (badness 2884) in paragraph at lines 107--121
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 options []\T1/ptm/m/n/10 ar-gu-ment can b
e used to con-trol com-piler op-er-a-tion. There are cur-
Underfull \hbox (badness 10000) in paragraph at lines 107--121
\T1/ptm/m/n/10 rently four op-tions: []\T1/pcr/m/n/10 optimize[]\T1/ptm/m/n/10 
, []\T1/pcr/m/n/10 suppressAll[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressUndef
ined[]\T1/ptm/m/n/10 , and
[696] [697] [698]) (./datasets-pkg.tex
Chapter 3.
[699] [700] [701] [702] [703]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 297--297
 []  \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang
e", cex = 1.2,[] 
[704]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 375--375
 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi
ven = FALSE)[] 
[705] [706] [707]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 613--613
 []           \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t
race = TRUE)[] 
[708] [709]
Underfull \hbox (badness 4779) in paragraph at lines 700--703
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[710] [711]
Underfull \hbox (badness 4779) in paragraph at lines 832--835
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[712] [713]
Underfull \hbox (badness 1097) in paragraph at lines 1034--1038
[]\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th
e iden-ti-fi-ca-tion of crim-i-nals.
[714] [715]
Underfull \hbox (badness 4779) in paragraph at lines 1149--1152
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[716] [717] [718] [719] [720]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1463--1463
 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption
 time (sec)")[] 
[721] [722]
Underfull \hbox (badness 10000) in paragraph at lines 1548--1551
[]\T1/ptm/m/n/10 Finally, []\T1/pcr/m/n/10 freeny []\T1/ptm/m/n/10 is a data fr
ame with vari-ables []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lag.q
uarterly.revenue[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 2903) in paragraph at lines 1548--1551
[]\T1/pcr/m/n/10 price.index[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 income.level[]\
T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 market.potential []\T1/ptm/m/n/10 ob-taine
d from the above
[723] [724] [725]
Underfull \hbox (badness 4779) in paragraph at lines 1737--1740
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[726]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1835--1835
 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil
y = binomial())[] 
[727]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1843--1843
 []  \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum),
 data = infert)[] 
[728]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1960--1960
 []\T1/pcr/m/n/9 ## Iris versicolor "differs twice as much from I. setosa as fr
om I. virginica"[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1965--1965
 []\T1/pcr/m/n/9 ## equivalence of legacy array (iris3) and data.frame (iris) r
epresentation[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1969--1969
 []                                        \T1/pcr/m/n/9 sub(" W.",".Width", dn
i3[[2]])))),[] 
[729]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1970--1970
 []    \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d
ni3[[3]]))))[] 
[730] [731] [732]
Underfull \hbox (badness 4779) in paragraph at lines 2173--2176
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[733] [734] [735] [736] [737] [738] [739] [740] [741] [742]
Underfull \hbox (badness 4779) in paragraph at lines 2738--2741
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[743] [744] [745] [746] [747] [748]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3168--3168
 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 
1.2, pch = ".")[] 
[749]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3215--3215
 []\T1/pcr/m/n/9 myrandu <- matrix(NA_real_, 400, 3, dimnames = list(NULL, c("x
","y","z")))[] 
[750] [751] [752] [753] [754]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 3521--3521
 []\T1/pcr/m/n/9 ## Alaska and Hawaii are placed just off the West Coast (for c
ompact map drawing):[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 3523--3523
 []\T1/pcr/m/n/9 ## state.center2 := version of state.center with "correct" coo
rdinates for AK & HI:[] 
Overfull \hbox (85.38034pt too wide) in paragraph at lines 3524--3524
 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis
t.html#Geographic%20Centers[] 
[755] [756]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3655--3655
 []          \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t
he monthly one:[] 
[757] [758]
Underfull \hbox (badness 4779) in paragraph at lines 3803--3806
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[759]
Overfull \vbox (10.49593pt too high) has occurred while \output is active
[760]
Overfull \vbox (15.49593pt too high) has occurred while \output is active
[761]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 4012--4012
 []       \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of
 supplement")[] 
Underfull \hbox (badness 10000) in paragraph at lines 4048--4050
[]\T1/ptm/m/n/10 For some pho-tos of Methuse-lah Walk see [][]$\T1/pcr/m/n/10 h
ttps : / / web . archive . org / web /
Underfull \hbox (badness 10000) in paragraph at lines 4048--4050
\T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma
n / sitephotos /
[762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773]
[774] [775]) (./grDevices-pkg.tex [776]
Chapter 4.
[777] [778] [779] [780]
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[]\T1/ptm/m/n/10 Apart from that, [][][]\T1/pcr/m/n/10 axisTicks[][][]() []\T1/
ptm/m/n/10 just calls the C func-tion []\T1/pcr/m/n/10 CreateAtVector() []\T1/p
tm/m/n/10 in
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\T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R\T1/pcr/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 
' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack
-age func-tion
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 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d
.pdf",[] 
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[]\T1/ptm/m/n/10 Hexadecimal string col-ors can be in the long hex-adec-i-mal f
orm (e.g., []\T1/pcr/m/n/10 "#rrggbb" []\T1/ptm/m/n/10 or
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 []\T1/pcr/m/n/9 names(clmult) <- sapply(clmult, function(x) paste(crgb[,x[1]],
 collapse = ","))[] 
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 []    \T1/pcr/m/n/9 lattice::cloud(blue ~ red + green, data = as.data.frame(tc
), col = cNms)[] 
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 []\T1/pcr/m/n/9 cNms[isC] # "white" "black" "blue" "cyan" "green" "magenta" "r
ed" "yellow"[] 
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 []   \T1/pcr/m/n/9 plot3d (tc, col = cNms, size = 11) # --> rotate w/ mouse; e
nlarged corners:[] 
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[]\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm
. The source code is in
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 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", 
scale.in = 255))[] 
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[]\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo
re of
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[]\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern")
[802] [803] [804] [805] [806]
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[]\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 dev.print []\T1/ptm/m/n/10 i
s to pro-duce and print a postscript copy. This will not
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\T1/ptm/m/n/10 sys-tem: see [][][]\T1/pcr/m/n/10 postscript[][][] []\T1/ptm/m/n
/10 for how to set this up. Win-dows users may pre-fer to use
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 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res 
= 72,[] 
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[]\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of []\T1/pcr
/m/n/10 ghostscript[]\T1/ptm/m/n/10 , but are likely to in-
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[]\T1/pcr/m/n/10 "tiffg4"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffgray"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "tifflzw"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffp
ack"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiff12nc"[]\T1/ptm/m/n/10 , []\T1/pcr/
m/n/10 "tiff24nc"[]\T1/ptm/m/n/10 ,
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[]\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the 
set-ting of
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 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac
ter())[] 
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[]\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript
 doc-u-men-ta-tion) are
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[]\T1/pcr/m/n/10 embedGlyphs() []\T1/ptm/m/n/10 is rec-om-mended for []\T1/pcr/
m/n/10 pdf() []\T1/ptm/m/n/10 files that con-tain type-set glyphs (see
[812] [813]
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[]\T1/ptm/m/n/10 are given, then it uses those in a call to []\T1/pcr/m/n/10 se
tGraphicsEventHandlers []\T1/ptm/m/n/10 to re-place
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\T1/ptm/m/n/10 any ex-ist-ing han-dlers in the cur-rent de-vice. This is for co
m-pat-i-bil-ity with pre-2.12.0
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\T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions. The cur-rent nor-mal way to set up e
vent han-dlers is to set them us-ing
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[]\T1/pcr/m/n/10 setGraphicsEventHandlers []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 
setGraphicsEventEnv []\T1/ptm/m/n/10 on one or more graph-ics
[814] [815]
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 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r"
, yaxs = "r") {[] 
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 []\T1/pcr/m/n/10 gray.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re
v = FALSE) 
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 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re
v = FALSE)[] 
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 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized
 = FALSE)[] 
[829]
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 []\T1/pcr/m/n/9 zapsmall(luv <- convertColor(cols, from = "sRGB", to = "Luv", 
scale.in = 255))[] 
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 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv",  to = hexcolor, scale.
out = NULL))[] 
[830] [831] [832]
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[]\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b
ased on the inter-quartile range
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 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl
e = FALSE,[] 
[834]
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 []\T1/pcr/m/n/9 (palette(gray(seq(0,.9,length.out = 25)))) # gray scales; prin
t old palette[] 
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 []\T1/pcr/m/n/9 ## Demonstrate the colors 1:8 in different palettes using a cu
stom matplot()[] 
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 []    \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:n, ylab =
 "", main=main)[] 
[835]
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 []\T1/pcr/m/n/9 palROB <- colorRampPalette(c("red", "darkorange2", "blue"), sp
ace = "Lab")[] 
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 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE,
 fixup = TRUE) 
[836]
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[]\T1/ptm/m/n/10 the type of palettes to list: []\T1/pcr/m/n/10 "qualitative"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sequential"[]\T1/ptm/m/n/10 ,
[837]
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[]\T1/ptm/m/n/10 For ex-am-ple, []\T1/pcr/m/n/10 "Dark 3" []\T1/ptm/m/n/10 work
s well for shad-ing points or lines in up to five groups,
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\T1/pcr/m/n/10 wikipedia . org / w / index . php ? title = HCL _ color _ space 
& oldid = 883465135$[][]\T1/ptm/m/n/10 .
[838]
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[840]
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[]\T1/ptm/m/n/10 as `\T1/pcr/m/n/10 "CP1250.enc"\T1/ptm/m/n/10 ' (Cen-tral Eu-r
o-pean), []\T1/pcr/m/n/10 "CP1251.enc"
[841] [842]
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\T1/ptm/m/n/10 PostScript fonts fam-i-lies of those names which are in-cluded (
or cloned) in all com-mon
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\T1/ptm/m/n/10 cod-ings (ex-cept []\T1/pcr/m/n/10 "TeXtext"[]\T1/ptm/m/n/10 ) a
gree over that range. Some en-cod-ings are su-per-sets of
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\T1/ptm/m/n/10 ISO-Latin1. How-ever, if ac-cented and spe-cial char-ac-ters do 
not come out as you ex-
[843] [844] [845]
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[]\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 family[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , [
]\T1/pcr/m/n/10 fonts[]\T1/ptm/m/n/10 ,
[846] [847] [848]pdfTeX warning (ext4): destination with the same identifier (n
ame{Rfn.symbol}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.4872 \aliasA{symbol}{plotmath}{symbol}
                                         [849] [850] [851] [852]
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[854] [855] [856]
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[]\T1/ptm/m/n/10 The TIFF spec-i-fi-ca-tion, [][]$\T1/pcr/m/n/10 https : / / ww
w . iso . org / standard / 34342 . html$[][]\T1/ptm/m/n/10 . See also
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 []\T1/pcr/m/n/9 ## Not run: dev.print(png, filename = "myplot.png", width = 10
24, height = 768)[] 
[857]
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[]\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE[]\T1/ptm/m/n/10 
, give a C in-te-ger for-mat such as
[858] [859] [860]
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[]\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t
ion by Brian D'Urso
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[][][]\T1/pcr/m/n/10 postscriptFonts[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 Devices[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 check.options[][][]
 []\T1/ptm/m/n/10 which is called from both
[861] [862]
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[]\T1/pcr/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Bookman"[]\T1
/ptm/m/n/10 , []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "He
lvetica"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 
,
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[]\T1/pcr/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Pal
atino" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/pc
r/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "URWBookman"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusMon"[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusSan" []\T1/ptm/m/n/10 (syn-onym []\T1/p
cr/m/n/10 "URWHelvetica"[]\T1/ptm/m/n/10 ),
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[]\T1/ptm/m/n/10 There are also map-pings for []\T1/pcr/m/n/10 "ComputerModern"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ComputerModernItalic" []\T1/ptm/m/n/10 and
[863]
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[]\T1/pcr/m/n/10 "Japan1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1HeiMin"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1GothicBBB"[]\T1/ptm/m/n/10 , and []\T1/p
cr/m/n/10 "Japan1Ryumin" []\T1/ptm/m/n/10 for
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[]\T1/pcr/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/p
cr/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu /
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[865]
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 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r
eg-tests-1c.R[] 
[866] [867]
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 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100
, ...)[] 
[868]
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[]\T1/ptm/m/n/10 Calling []\T1/pcr/m/n/10 quartz() []\T1/ptm/m/n/10 sets [][][]
\T1/pcr/m/n/10 .Device[][][] []\T1/ptm/m/n/10 to []\T1/pcr/m/n/10 "quartz" []\T
1/ptm/m/n/10 for on-screen de-vices and to
[869]
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 []  \T1/pcr/m/n/9 quartzFonts("mono")          # the list(mono = ..) sublist o
f quartzFonts()[] 
[870] [871] [872]
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\T1/ptm/m/n/10 play List", [][]$\T1/pcr/m/n/10 https : / / stattech . wordpress
 . fos . auckland . ac . nz / 2015 / 12 / 21 /
[873]
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 []\T1/pcr/m/n/9 rgb((0:15)/15, green = 0, blue = 0, names = paste("red", 0:15,
 sep = "."))[] 
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[]\T1/pcr/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r
ed/green/blue) into HSV space
[874] [875]
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[877]
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 []\T1/pcr/m/n/9 p <- persp(x, y, fxy <- outer(x,y), phi = 20, theta = 15, r = 
3, ltheta = -75,[] 
[878]
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 []\T1/pcr/m/n/9 ## now some "horizontal rays" (going from center to very left 
or very right):[] 
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 []    \T1/pcr/m/n/9 lines(trans3d(x=seq(x1, x2, by=0.5), y= -0.7, z = z, pmat 
= p, continuous = CNT),[] 
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 []\T1/pcr/m/n/9 doHor(-10,  0, z = -0.5, col = 2)  # x in [-10, 0] -- to the v
ery left : fine[] 
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 []\T1/pcr/m/n/9 doHor(-.5,  2, z = -0.52,col = 4) # x in [-0.5, 2] only {to th
e right} --> all fine[] 
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 []\T1/pcr/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro
blem (without \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 continuous=TRUE\TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 ):[] 
[879] [880]
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 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp
inch, 
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 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize 
= 12,[] 
[881] [882] [883] [884]
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[]\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/ptm/m/n/10 , []\
T1/pcr/m/n/10 record[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 rescale[]\T1/ptm/m/n/10
 ,
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[]\T1/pcr/m/n/10 xpinch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 ypinch[]\T1/ptm/m/n/
10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 canvas[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 gamma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 xpos[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 ypos[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 buffered[]\T1/
ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 restoreConsole[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 clickToConfi
rm[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 
fillOddEven []\T1/ptm/m/n/10 and
[885]
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 []\T1/pcr/m/n/9 windows()  # make sure we have the right device type (availabl
e on Windows only)[] 
[886]
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[]\T1/ptm/m/n/10 The \T1/phv/m/n/10 R \T1/ptm/m/n/10 func-tion is a wrap-per fo
r two de-vices, one based on Xlib ([][]$\T1/pcr/m/n/10 https : / /
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\T1/pcr/m/n/10 en . wikipedia . org / wiki / Xlib$[][]\T1/ptm/m/n/10 ) and one 
us-ing cairo-graph-ics ([][]$\T1/pcr/m/n/10 https : / / www .
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 []    \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol
family)[] 
[887]
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[]\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used
. One of
[888]
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[]\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ
K lan-guages and
[889]
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[]\T1/ptm/m/n/10 Problems with in-cor-rect ren-der-ing of sym-bols (e.g., of []
\T1/pcr/m/n/10 quote(pi) []\T1/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 expression(10^degree)[]\T1/ptm/m/n/10 ) have been seen on Linu
x sys-tems which have the Wine
[890]
Underfull \hbox (badness 5607) in paragraph at lines 7735--7739
[]\T1/pcr/m/n/10 type = "Xlib" []\T1/ptm/m/n/10 sup-ports `True-Color', `Pseu-d
o-Color', `GrayScale', []\T1/pcr/m/n/10 StaticGray []\T1/ptm/m/n/10 and
[891]
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 []        \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height
 = 6, xpos = 0,[] 
[892] [893]
Underfull \hbox (badness 5637) in paragraph at lines 7923--7929
[]\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica" []\T1
/ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10
 ,
[894] [895]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 8090--8090
 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp
ress the one "we know":[] 
[896]
Underfull \hbox (badness 1231) in paragraph at lines 8129--8131
[]\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., []\T1/pcr/m/n/10
 number[i] []\T1/ptm/m/n/10 is the mul-ti-plic-ity of
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 []\T1/pcr/m/n/9 xy <- data.frame(x = round(sort(stats::rnorm(100))), y = stats
::rnorm(100))[] 
[897] [898]) (./graphics-pkg.tex
Chapter 5.
Underfull \hbox (badness 4647) in paragraph at lines 16--18
[]\T1/ptm/m/n/10 For a com-plete list of func-tions with in-di-vid-ual help pag
es, use []\T1/pcr/m/n/10 library(help =
[899] [900] [901] [902] [903] [904] [905]
Overfull \hbox (6.05087pt too wide) in paragraph at lines 450--450
 []  \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] 
Underfull \hbox (badness 4048) in paragraph at lines 482--488
[]\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 at = NULL[]\T1/ptm/m/n/10 , pretty tick 
mark lo-ca-tions are com-puted in-ter-nally (the same way
[906] [907]
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 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t
he axis labels drawn[] 
[908]
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 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis 
= "darkgreen")[] 
[909]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 712--712
 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.POSIXct("2022-10-01 00:01:30"), col.ax
is = "orange")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 717--717
 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.numeric(as.POSIXct("2022-10-01 00:00:3
0")) + 0.25,[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 718--718
 []                \T1/pcr/m/n/9 col.axis = "forestgreen", col = "darkgreen", m
gp = c(3,2,0))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 724--724
 []\T1/pcr/m/n/9 plot(data.frame(HST, y = 1), xaxt = "n", xlab = "Hawaii Standa
rd Time (HST)")[] 
Underfull \hbox (badness 10000) in paragraph at lines 751--755
[]\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][][]\T1/pcr
/m/n/10 par[][][]("xaxp") []\T1/ptm/m/n/10 or
Underfull \hbox (badness 3250) in paragraph at lines 751--755
[][][]\T1/pcr/m/n/10 par[][][]("yaxp") []\T1/ptm/m/n/10 de-pend-ing on the []\T
1/pcr/m/n/10 side []\T1/ptm/m/n/10 ar-gu-ment ([]\T1/pcr/m/n/10 par("xaxp") []\
T1/ptm/m/n/10 if
[910] [911]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 838--838
 []                 \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n
intLog = 5))[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 875--875
 []        \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = 
NULL, ...)[] 
[912] [913]
Underfull \hbox (badness 10000) in paragraph at lines 1020--1024
[][][]\T1/pcr/m/n/10 plot[][][](..., type = "h")[]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 dotchart[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 hist[][][] []\T1
/ptm/m/n/10 for bars of a \T1/ptm/m/it/10 con-tin-u-ous \T1/ptm/m/n/10 vari-abl
e.
[914]
Overfull \hbox (133.98029pt too wide) in paragraph at lines 1037--1037
 []        \T1/pcr/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = "
# {passengers}", legend.text = TRUE)[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1039--1039
 []\T1/pcr/m/n/9 (xt <- xtabs(Freq ~ Survived + Class + Sex, d.Titanic, subset 
= Age=="Adult"))[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 1041--1041
 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur
vived, *)", color=TRUE)[] 
[915] [916] [917] [918]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1324--1324
 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. 
outside hinges"):[] 
[919] [920] [921]
Underfull \hbox (badness 2503) in paragraph at lines 1486--1495
\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 horizontal []\T1/ptm/m/n/10 is false, and 
[]\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 hor-i-zon-tally. []\T1/pcr/m/n/10 xaxt[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yaxt[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3375) in paragraph at lines 1521--1523
[]\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt
m/m/n/10 ),
[922]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1593--1593
 []\T1/pcr/m/n/9 boxplot(z,   col.axis = "skyblue3", main = "boxplot(*, col.axi
s=..,main=..)")[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1594--1594
 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main =    "plot(*, col.axi
s=..,main=..)")[] 
[923]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1600--1600
 []\T1/pcr/m/n/9 splus <- list(boxwex = 0.4, staplewex = 1, outwex = 1, boxfill
 = "grey40",[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 1601--1601
 []              \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl
ty = 1, outpch = NA)[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 1634--1634
 []  \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU
LL, ...)[] 
[924] [925] [926] [927] [928]
Underfull \hbox (badness 10000) in paragraph at lines 1907--1913
[][][]\T1/pcr/m/n/10 contourLines[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
filled.contour[][][] []\T1/ptm/m/n/10 for color-filled con-tours, [][][]\T1/pcr
/m/n/10 contourplot[][][] []\T1/ptm/m/n/10 (and
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1927--1927
 []\T1/pcr/m/n/9 contour(x, x, z, ylim = c(-6, 6), nlevels = 20, lty = 2, metho
d = "simple",[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1939--1939
 []\T1/pcr/m/n/9 contour(z, levels=levs[-c(1,length(levs))], col = 1:5, lwd = 1
:3 *1.5, lty = 1:3)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1955--1955
 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1964--1964
 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
[929] [930]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2049--2049
 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col
umns, 
[931] [932]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 2178--2178
 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given
.depth, rows = 1)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 2183--2183
 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c(
TRUE, FALSE))[] 
[933] [934]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2357--2357
 []\T1/pcr/m/n/10 dotchart(x, labels = NULL, groups = NULL, gdata = NULL, offse
t = 1/8, 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 2358--2358
 []         \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T
RUE, log = "",[] 
[935]
Underfull \hbox (badness 1430) in paragraph at lines 2388--2390
[]\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/pcr/m/n/10 
"n" []\T1/ptm/m/n/10 to sup-press and see also
[936]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 2469--2469
 []               \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO
rRd", rev = TRUE),[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 2471--2471
 []               \T1/pcr/m/n/10 plot.title, plot.axes, key.title, key.axes, ke
y.border = NULL,[] 
Underfull \hbox (badness 1009) in paragraph at lines 2481--2488
\T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n
ot ap-ply to
[937]
Underfull \hbox (badness 7273) in paragraph at lines 2564--2568
[][][]\T1/pcr/m/n/10 contour[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 image
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 hcl.colors[][][][]\T1/ptm/m/n/10 
, [][][]\T1/pcr/m/n/10 gray.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 palette[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 contourplot[][][] []\T1/p
tm/m/n/10 and
[938] [939] [940] [941]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2813--2813
 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks:  par(lab = c
(mx, my, 7))[] 
[942]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 2834--2834
 []\T1/pcr/m/n/9 plot(8:270, log="xy") ; grid() # at (1, 10, 100); if preferrin
g "all" grid lines:[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2861--2861
 []     \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = 
NULL,[] 
[943] [944]
Underfull \hbox (badness 1226) in paragraph at lines 2988--2992
\T1/pcr/m/n/10 1)[]\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies []\T1
/pcr/m/n/10 counts/n []\T1/ptm/m/n/10 and in gen-eral sat-isfy
[945]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3041--3041
 []\T1/pcr/m/n/9 ## Extreme outliers; the "FD" rule would take very large numbe
r of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 breaks\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3045--3045
 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a 
suggestion only"[] 
[946]
Underfull \hbox (badness 10000) in paragraph at lines 3107--3110
[][][]\T1/ptm/m/n/10 graphical pa-ram-e-ters[][][], or ar-gu-ments to [][][]\T1
/pcr/m/n/10 hist.default[][][] []\T1/ptm/m/n/10 such as
[947]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3158--3158
 []\T1/pcr/m/n/9 ## The default fuzz in hist.default()  "kills" this, with a "w
rong" message:[] 
[948] [949]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3322--3322
 []\T1/pcr/m/n/9 identifyPch <- function(x, y = NULL, n = length(x), plot = FAL
SE, pch = 19, ...)[] 
Overfull \hbox (79.98035pt too wide) in paragraph at lines 3327--3327
 []        \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel)
, n = 1, plot = plot, ...)[] 
[950] [951]
Underfull \hbox (badness 10000) in paragraph at lines 3469--3474
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 useRaster []\T1/ptm/m/n/10 is not spec-i-f
ied, raster im-ages are used when the
Underfull \hbox (badness 10000) in paragraph at lines 3469--3474
[][][]\T1/pcr/m/n/10 getOption[][][]("preferRaster") []\T1/ptm/m/n/10 is true, 
the grid is reg-u-lar and ei-ther
Underfull \hbox (badness 10000) in paragraph at lines 3469--3474
[][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt
m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3504--3504
 []\T1/pcr/m/n/9 # Visualize as matrix.  Need to transpose matrix and then flip
 it horizontally:[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3506--3506
 []\T1/pcr/m/n/9 imageM <- function(m, grid = max(dim(m)) <= 25, asp = (nrow(m)
-1)/(ncol(m)-1), ...) {[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3509--3509
 []        \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray
", col.axis=1, ...)[] 
[952] [953] [954]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3666--3666
 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 
0, horiz = TRUE)[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 3685--3685
 []       \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = 
par("fg"),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3689--3689
 []       \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace =
 FALSE,[] 
[955] [956] [957]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3874--3874
 []  \T1/pcr/m/n/9 text  (1, y.leg[i] - 0.1, paste("cex=", formatC(cexv[i])), c
ex = 0.8, adj = 0)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3875--3875
 []  \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce
x = cexv[i])[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3879--3879
 []       \T1/pcr/m/n/9 cex = 1+(-1:2)/8, trace = TRUE)# trace: show computed l
engths & coords[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3889--3889
 []  \T1/pcr/m/n/9 title("legend(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 top\TS1/pcr/m/n/
9 '\T1/pcr/m/n/9 , lty = c(2, -1, 1), pch = c(NA, 3, 4), merge = TRUE)",[] 
[958]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3920--3920
 []                      \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj
 = c(0, 0.3))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3946--3946
 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Filled\TS1/pcr/m/n/9 ' \T1/pc
r/m/n/9 boxes -- see also example(barplot) which may call legend(*, fill=)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3948--3948
 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow
(VADeaths)))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [959]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3959--3959
 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7
, lty = 1:7,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3974--3974
 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c
ol = "blue")[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3982--3982
 []\T1/pcr/m/n/9 legend("topleft",     "(x,y)", pch=1, title= "topleft, inset =
 .05", inset = .05)[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3984--3984
 []\T1/pcr/m/n/9 legend("topright",    "(x,y)", pch=1, title= "topright, inset 
= .02",inset = .02)[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3992--3992
 []   \T1/pcr/m/n/9 plot(1, type = "n", axes = FALSE, ann = FALSE); title(paste
("text.font =",i))[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4002--4002
 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized"
, "columns."),[] 
[960]
Underfull \hbox (badness 10000) in paragraph at lines 4064--4068
[][][]\T1/pcr/m/n/10 lines.formula[][][] []\T1/ptm/m/n/10 for the for-mula meth
od; [][][]\T1/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , par-tic-u-larly for []\
T1/pcr/m/n/10 type %in%
[961] [962]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 4176--4176
 []        \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb
ose"))[] 
[963] [964]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 4330--4330
 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le
ngth.out = 100))[] 
[965]
Underfull \hbox (badness 3930) in paragraph at lines 4409--4411
[]\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a 
mul-ti-ple of
[966] [967] [968] [969] [970]
Underfull \hbox (badness 1286) in paragraph at lines 4725--4728
[]\T1/ptm/m/n/10 which draws the ti-tle. You may want to spec-ify []\T1/pcr/m/n
/10 oma []\T1/ptm/m/n/10 when chang-ing
Underfull \hbox (badness 3229) in paragraph at lines 4733--4738
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are 
to be used, see
[971] [972]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4829--4829
 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel 
= panel.cor,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4834--4834
 []      \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma
=c(2,2,3,2))[] 
[973] [974]
Underfull \hbox (badness 1264) in paragraph at lines 5096--5109
\T1/ptm/m/n/10 func-tions such as [][][]\T1/pcr/m/n/10 plot.default[][][][]\T1/
ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.window[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lines[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 abline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 axis[][][][]\T1/ptm/m/n/10 ,
[975] [976] [977]
Underfull \hbox (badness 10000) in paragraph at lines 5362--5365
[978 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//mai.pdf>]
Underfull \hbox (badness 10000) in paragraph at lines 5423--5425
[979 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//oma.pdf>]
[980] [981]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5672--5672
 []\T1/pcr/m/n/9 c(prof.pilots = 16, lawyers = 11, farmers = 10, salesmen = 9, 
physicians = 9,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5673--5673
 []  \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t
eachers = 4,[] 
[982] [983] [984]
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 []\T1/pcr/m/n/9 points(trans3d(xy[,1], xy[,2], z = 6,          pmat = res), co
l = 2, pch = 16)[] 
[985] [986] [987]
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 []\T1/pcr/m/n/9 pie(c(Sky = 78, "Sunny side of pyramid" = 17, "Shady side of p
yramid" = 5),[] 
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 []    \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow
3"), border = FALSE)[] 
[988]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot
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                   \relax 
l.6097 \aliasA{plot}{plot.default}{plot}
                                         [989] [990] [991] [992] [993]
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 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth)           # numeric v
ector ~ factor[] 
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 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes")  # ext
remely silly[] 
[994] [995]
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 []               \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co
llapse = "\n")),[] 
[996] [997] [998] [999]
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[]\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see
[1000] [1001]
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[]\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th
is works as a mul-ti-ple of
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[][] 
[1002 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//pch.pdf>]
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 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b
lue", cex = .6,[] 
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 []\T1/pcr/m/n/9 ## Illustration of pch = 0:25 (as in the figure shown above in
 PDF/HTML help)[] 
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 []\T1/pcr/m/n/9 ## Not run: png("pch.png", height = 0.7, width = 7, res = 100,
 units = "in")[] 
[1003]
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 []    \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes  =  FALSE, xlab = "", ylab =
 "", main = main)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1004]
[1005]
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[]\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev
in Buhr
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 []  \T1/pcr/m/n/9 polygon(x, y, xpd = xpd, col = "orange", lty = 2, lwd = 2, b
order = "red")[] 
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 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats::
rnorm(n)))))[] 
[1006]
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[]\T1/ptm/m/n/10 character value spec-i-fy-ing the path fill mode: ei-ther []\T
1/pcr/m/n/10 "winding" []\T1/ptm/m/n/10 or
[1007] [1008] [1009] [1010]
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 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7
, end = 0.1))[] 
[1011] [1012] [1013] [1014] [1015] [1016]
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 []\T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), sp
ace = "Lab")[] 
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 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit
h obs.number):[] 
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 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0
, add = TRUE),[] 
[1017]
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 []          \T1/pcr/m/n/10 xlim = NULL, ylim = c(0, 1), axes = TRUE, weights =
 NULL, ...)[] 
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 []          \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels =
 FALSE)[] 
[1018] [1019] [1020] [1021] [1022]
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 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi
us  =  FALSE,[] 
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 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi
us  =  FALSE,[] 
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 []      \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10
, key.loc =  0:1,[] 
[1023] [1024] [1025]
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NULL, ...) 
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 NULL, ...)[] 
[1026] [1027]
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 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL,
 ...,[] 
[1028]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 number[i] == 1[]\T1/ptm/m/n/10 , a (sligh
tly en-larged) usual plot-ting sym-bol ([]\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 ) 
is drawn. For
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 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035
, seg.lwd = .8)[] 
[1029]
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 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, 
lambda = 2),[] 
[1030] [1031]
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 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll
apse = ","),[] 
[1032] [1033]
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 []     \T1/pcr/m/n/9 "Le fran�ais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est facile: 
R�gles, Libert�, Egalit�, Fraternit�...")[] 
[1034]
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[]\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/pcr/m
/n/10 par(c("font.sub",
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[]\T1/ptm/m/n/10 The po-si-tions of []\T1/pcr/m/n/10 xlab[]\T1/ptm/m/n/10 , []\
T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sub []\T1/ptm/m/n/10 a
re []\T1/pcr/m/n/10 line []\T1/ptm/m/n/10 (de-fault for []\T1/pcr/m/n/10 xlab [
]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 be-ing
[1035]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni
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l.9191 \HeaderA{units}{Graphical Units}{units}
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n with the same identifier (name{Rfn.units.1}) has been already used, duplicate
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l.9191 \HeaderA{units}{Graphical Units}{units}
                                               [1036]
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[]\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th
e poly-gon. See
[1037] [1038]
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 []\T1/pcr/m/n/9 arrows(res$x[nr-3], res$y[nr-3], res$x[nr], res$y[nr], code = 
2, length = 0.1)[] 
[1039]) (./grid-pkg.tex [1040]
Chapter 6.
[1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050]
Underfull \hbox (badness 4859) in paragraph at lines 635--638
[]\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments
 to the
[1051] [1052] [1053] [1054] [1055] [1056]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1057] [1058] [1059]
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, height=0.5,[] 
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), name="B"),[] 
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, height=0.5,[] 
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), name="C"),[] 
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, height=0.5,[] 
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), name="D")),[] 
[1060] [1061] [1062] [1063]
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[]\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject 
de-scrib-ing a cir-cle), but only
[1064] [1065] [1066] [1067] [1068] [1069] [1070]
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 []  \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75)
, list(...)))[] 
[1071] [1072] [1073]
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.25, y=.75, gp=gpar(fill="bla
ck"), name="r1")[] 
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.5, y=.5, gp=gpar(fill="grey"
), name="r2")[] 
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi
te"), name="r3")[] 
[1074]
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[]\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio
ns []\T1/pcr/m/n/10 preDrawDetails[]\T1/ptm/m/n/10 ,
[1075]
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[]\T1/ptm/m/n/10 Both func-tions call []\T1/pcr/m/n/10 editDetails []\T1/ptm/m/
n/10 to al-low a grob to per-form cus-tom ac-tions and
[1076] [1077] [1078]
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[]\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de
-scrib-ing a frame), but only
[1079] [1080] [1081]
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 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = 
FALSE)[] 
[1082]
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[]\T1/ptm/m/n/10 The jus-ti-fi-ca-tion of the glyphs rel-a-tive to the ([]\T1/p
cr/m/n/10 x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) lo-ca-tion. 
Can be
[1083]
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 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs =
 FALSE,[] 
[1084] [1085]
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 []                          \T1/pcr/m/n/9 children=gList(grob(name="child", vp
="vp1::vp2")),[] 
[1086]
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 []           \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp =
 NULL)[] 
[1087] [1088]
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[]\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix;
 see
[1089]
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[]\T1/ptm/m/n/10 Another pos-si-ble use of []\T1/pcr/m/n/10 grid.group() []\T1/
ptm/m/n/10 is to spec-ify both []\T1/pcr/m/n/10 src []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 dst []\T1/ptm/m/n/10 and com-bine
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[]\T1/ptm/m/n/10 is only drawn where it is NOT over-lapped by []\T1/pcr/m/n/10 
src[]\T1/ptm/m/n/10 . The fol-low-ing (ex-tended) Porter-
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[]\T1/pcr/m/n/10 "multiply"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "screen"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "overlay"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "darke
n"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lighten"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n
/10 "color.dodge"[]\T1/ptm/m/n/10 ,
[1090]
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 []  \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty
pe="luminance")[] 
[1091]
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 []  \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1
, "inches"),[] 
[1092] [1093] [1094] [1095] [1096]
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 []                                       \T1/pcr/m/n/9 children=vpList(viewpor
t(name="vp2"))))[] 
[1097] [1098]
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 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, width=0.25, height=0.25, just=
c("left", "bottom")))[] 
Underfull \hbox (badness 2799) in paragraph at lines 3756--3762
[]\T1/ptm/m/n/10 There are two hooks called []\T1/pcr/m/n/10 "before.grid.newpa
ge" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "grid.newpage" []\T1/ptm/m/n/10 (see
[1099] [1100]
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 []          \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border =
 NULL,[] 
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 []          \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border =
 NULL,[] 
[1101] [1102] [1103]
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 []                \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant
i-clockwise")[] 
[1104]
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 []                \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other 
anti-clockwise")[] 
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 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s
ame path, thus[] 
[1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115]
[1116]
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[]\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec
t de-scrib-ing seg-ments), but only
[1117] [1118] [1119] [1120]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1121] [1122]
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[]\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject
s are co-erced by
[1123]
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 []\T1/pcr/m/n/9 grid.text(quote(frac(e^{-x^2/2}, sqrt(2*pi))), x=x, y=y, rot=s
tats::runif(20, -45,45),[] 
[1124] [1125] [1126] [1127] [1128] [1129]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 gridCoords []\T1/ptm/m/n/10 a nu-meric ve
c-tor. For []\T1/pcr/m/n/10 gridGrobCoords []\T1/ptm/m/n/10 a list
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\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 "GridCoords" []\T1/ptm/m/n/10 ob-jects. For 
[]\T1/pcr/m/n/10 gridGTreeCoords []\T1/ptm/m/n/10 a list of ei-ther
[1130]
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[]\T1/ptm/m/n/10 Either a []\T1/pcr/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob
-ject (a list of lists with com-po-nents []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 an
d []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) or a
[1131] [1132] [1133]
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[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 grid.legend()[]\T1/ptm/m/n/10 : all the a
r-gu-ments above are passed to
[1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144]
[1145] [1146] [1147] [1148] [1149] [1150]
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 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r
ecurse=TRUE)[] 
[1151] [1152]
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 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip()
, device=TRUE) 
[1153]
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[]\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for 
use in []\T1/pcr/m/n/10 downViewport []\T1/ptm/m/n/10 or
[1154]
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[][][]\T1/pcr/m/n/10 viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 push
Viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 popViewport[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 seekViewport[][][][]\T1/ptm/m/n/10 ,
[1155] [1156] [1157]
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[1159] [1160]
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 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp
ar(col="red"))))[] 
[1161]) (./methods-pkg.tex [1162]
Chapter 7.
[1163] [1164]
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[]\T1/ptm/m/n/10 func-tion. See that doc-u-men-ta-tion also for de-tails of how
 co-erce meth-ods work. Use
[1165] [1166] [1167]
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[][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in-
for-ma-tion about group generic func-tions; [][]Meth-
[1168] [1169]
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 []\T1/pcr/m/n/9 ## vector.  The next method will always be the default, usuall
y a primitive.[] 
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 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w
ith no arguments[] 
[1170]
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 []\T1/pcr/m/n/9 ## Simple examples to illustrate callNextMethod with and witho
ut arguments[] 
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 []\T1/pcr/m/n/9 ## call f() with 2 arguments: callNextMethod passes both to th
e default method[] 
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 []\T1/pcr/m/n/9 ## call f() with 1 argument:  the default "B0" is not passed b
y callNextMethod[] 
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 []\T1/pcr/m/n/9 ## uses the class of the *argument* to consistently select the
 "B0" method[] 
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 []\T1/pcr/m/n/9 ## Although the argument here is numeric, it\TS1/pcr/m/n/9 '\T
1/pcr/m/n/9 s still the "B0" method that\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s called[
] 
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[1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183]
[1184] [1185] [1186]
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 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N
umber" method[] 
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 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE))
) # the default[] 
[1187] [1188]
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[]\T1/ptm/m/n/10 The ar-gu-ment to []\T1/pcr/m/n/10 insertSource []\T1/ptm/m/n/
10 can be an ob-ject of class
[1189] [1190] [1191]
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[]\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age
, use []\T1/pcr/m/n/10 where =
[1192] [1193]
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[]\T1/ptm/m/n/10 To see the ac-tual ta-ble (an [][][]\T1/pcr/m/n/10 environment
[][][][]\T1/ptm/m/n/10 ) used for meth-ods dis-patch, call
[1194] [1195] [1196]
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[]\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/pcr/m/n/10 setGeneric[][][] []\
T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c
re-ate ob-jects of class
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[]\T1/ptm/m/n/10 Object of class []\T1/pcr/m/n/10 "optionalMethod" []\T1/ptm/m/
n/10 (a union of classes []\T1/pcr/m/n/10 "function" []\T1/ptm/m/n/10 and
[1197]
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 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin
g(where))[] 
[1198] [1199] [1200]
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 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers
ions visible:[] 
[1201] [1202] [1203] [1204] [1205] [1206] [1207]
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[]\T1/ptm/m/n/10 Function []\T1/pcr/m/n/10 implicitGeneric() []\T1/ptm/m/n/10 r
e-turns the im-plicit generic ver-sion,
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[]\T1/pcr/m/n/10 setGenericImplicit() []\T1/ptm/m/n/10 turns a generic im-plici
t, []\T1/pcr/m/n/10 prohibitGeneric() []\T1/ptm/m/n/10 pre-vents
[1208] [1209]
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[]\T1/ptm/m/n/10 For a class (or class def-i-ni-tion, see [][][]\T1/pcr/m/n/10 
getClass[][][] []\T1/ptm/m/n/10 and the de-scrip-tion of class
[1210]
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[]
[1211] [1212]
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[] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit
ude =
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[]\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) {
[1213]
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[]\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character")
,
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[]\T1/ptm/m/n/10 A call to [][][]\T1/pcr/m/n/10 selectSuperClasses[][][](cl) []
\T1/ptm/m/n/10 re-turns a list of su-per-classes, sim-i-larly to
[1214] [1215] [1216] [1217] [1218] [1219]
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 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char
acter(), 
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 []                        \T1/pcr/m/n/10 prototype=NULL, package, validity, ac
cess,[] 
[1220]
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 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w
here) 
[1221] [1222] [1223]
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[]\T1/ptm/m/n/10 For ad-di-tional in-for-ma-tion see doc-u-men-ta-tion for the 
im-por-tant steps: ([][][]\T1/pcr/m/n/10 setMethod[][][]()[]\T1/ptm/m/n/10 ,
[1224] [1225] [1226]
Underfull \hbox (badness 10000) in paragraph at lines 4812--4821
[]\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha
t eval-u-ates a call to
[1227] [1228] [1229] [1230]
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 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate
 inheritance[] 
[1231]
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 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli
er fails here)[] 
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 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho
d for classB[] 
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[1233]
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[]\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...)
[1234] [1235]
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[]\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p
assed to
[1236] [1237] [1238]
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[]\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o
ds for this class are found (us-ing
[1239] [1240] [1241] [1242] [1243] [1244]
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[]\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 $initialize() []\T1/p
tm/m/n/10 is equiv-a-lent to in-vok-ing the method
[1245] [1246]
Underfull \hbox (badness 1248) in paragraph at lines 6343--6347
[]\T1/ptm/m/n/10 Typically, a spe-cial-ized []\T1/pcr/m/n/10 $initialize() []\T
1/ptm/m/n/10 method car-ries out its own com-pu-ta-tions,
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\T1/ptm/m/n/10 then in-vokes []\T1/pcr/m/n/10 $initFields() []\T1/ptm/m/n/10 to
 per-form stan-dard ini-tial-iza-tion, as shown in the
[1247]
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[]\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func-
tion re-turned by
[1248] [1249]
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[]\T1/ptm/m/n/10 Reference classes can have va-lid-ity meth-ods in the same sen
se as any S4 class (see
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[][][]\T1/pcr/m/n/10 setValidity[][][][]\T1/ptm/m/n/10 ). Such meth-ods are of-
ten a good idea; they will be called by call-ing
[1250]
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[1252] [1253]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.S4}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6972 \aliasA{S4}{S3Part}{S4}
                               [1254]
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 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement 
version of as().[] 
[1255] [1256]
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 []\T1/pcr/m/n/9 fit <- lm(sepal ~ Petal.Length + Petal.Width + Species, data =
 datasets::iris)[] 
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 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con
tains = "mlm")[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7228 \aliasA{Complex}{S4groupGeneric}{Complex}
                                                pdfTeX warning (ext4): destinat
ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate
 ignored
<to be read again> 
                   \relax 
l.7230 \aliasA{Logic}{S4groupGeneric}{Logic}
                                            pdfTeX warning (ext4): destination 
with the same identifier (name{Rfn.Math}) has been already used, duplicate igno
red
<to be read again> 
                   \relax 
l.7231 \aliasA{Math}{S4groupGeneric}{Math}
                                          pdfTeX warning (ext4): destination wi
th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7233 \aliasA{Ops}{S4groupGeneric}{Ops}
                                        pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor
ed
<to be read again> 
                   \relax 
l.7234 \aliasA{Summary}{S4groupGeneric}{Summary}
                                                 [1257]
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[]\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic 
can be ob-tained by call-ing
[1258]
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[]\T1/pcr/m/n/10 "abs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sign"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "sqrt"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ceiling"[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 "floor"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trunc"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cummax"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "acosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "asin"[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 "asinh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "atan"[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 "atanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "exp"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expm1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "c
os"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "cosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cospi"[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 "sin"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sinh"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "sinpi"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tan"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanp
i"[]\T1/ptm/m/n/10 ,
[1259] [1260]
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[]\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t
ion ob-ject (see
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[]\T1/ptm/m/n/10 The typ-i-cal user level func-tion is []\T1/pcr/m/n/10 selectS
uperClasses() []\T1/ptm/m/n/10 which calls
[1261]
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 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d
itto w/o "Root"[] 
[1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272]
[1273] [1274]
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 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact
er(), 
[1275]
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 []      \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class
Def =,[] 
[1276] [1277] [1278] [1279]
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 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col
umn matrices[] 
[1280] [1281] [1282]
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 []  \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns),
 "setCount")[] 
[1283] [1284] [1285]
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 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo
rmal arguments[] 
[1286] [1287] [1288] [1289]
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 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre
es of freedom[] 
[1290]
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 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
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 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
[1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299]
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[]\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance 
in R [][]$\T1/pcr/m/n/10 https : / / johnmchambers . su .
[1300]
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[]\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., []\T1/pcr/m/n/10 "functi
on" []\T1/ptm/m/n/10 for class
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[]\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl
ass, from the data part; e.g.,
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[]\T1/pcr/m/n/10 "functionWithTrace" []\T1/ptm/m/n/10 ex-tends []\T1/pcr/m/n/10
 "function"[]\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends
[1301] [1302] [1303] [1304]) (./parallel-pkg.tex
Chapter 8.
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[]\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/p
cr/m/n/10 "L\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][]
RNG[][][]: see
[1305]
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[]\T1/ptm/m/n/10 a vec-tor for []\T1/pcr/m/n/10 clusterApply []\T1/ptm/m/n/10 a
nd []\T1/pcr/m/n/10 clusterApplyLB[]\T1/ptm/m/n/10 , a ma-trix for
[1306] [1307]
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[]\T1/ptm/m/n/10 Two ex-cep-tions: []\T1/pcr/m/n/10 parLapply []\T1/ptm/m/n/10 
has ar-gu-ment []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 not []\T1/pcr/m/n/10 x []\T1
/ptm/m/n/10 for con-sis-tency with [][][]\T1/pcr/m/n/10 lapply[][][][]\T1/ptm/m
/n/10 , and
[1308]
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[]\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, 
So-laris and Win-dows.
[1309] [1310]
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[]\T1/ptm/m/n/10 Character vec-tor of ad-di-tional ar-gu-ments for []\T1/pcr/m/
n/10 Rscript []\T1/ptm/m/n/10 such as
[1311] [1312] [1313] [1314] [1315]
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[]\T1/pcr/m/n/10 mcfork []\T1/ptm/m/n/10 re-turns an ob-ject of the class []\T1
/pcr/m/n/10 "childProcess" []\T1/ptm/m/n/10 to the mas-ter and of class
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[]\T1/pcr/m/n/10 "masterProcess" []\T1/ptm/m/n/10 to the child: both the classe
s in-herit from class []\T1/pcr/m/n/10 "process"[]\T1/ptm/m/n/10 . If
[1316]
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 []         \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini
ty.list = NULL)[] 
[1317] [1318] [1319]
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 []\T1/pcr/m/n/9 mclapply(list(A, A, A), first, mc.preschedule = FALSE, affinit
y.list = affL)[] 
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 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch
eduled to suitable CPUs[] 
[1320] [1321]
Underfull \hbox (badness 5388) in paragraph at lines 1182--1187
[]\T1/pcr/m/n/10 mcparallel []\T1/ptm/m/n/10 re-turns an ob-ject of the class [
]\T1/pcr/m/n/10 "parallelJob" []\T1/ptm/m/n/10 which in-her-its from
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[]\T1/ptm/m/n/10 The be-haviour with []\T1/pcr/m/n/10 mc.set.seed = TRUE []\T1/
ptm/m/n/10 is dif-fer-ent only if
[1322]
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 []\T1/pcr/m/n/9 mccollect(p, wait = FALSE, 10) # will retrieve the result (sin
ce it\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s fast)[] 
[1323]
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 []                 \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif
(N, 1, 28)))[] 
[1324]
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 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct,  format = 
"%Y-%m-%d")))[] 
Underfull \hbox (badness 1577) in paragraph at lines 1400--1403
[]\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/pcr/m/n/10 
.Random.seed []\T1/ptm/m/n/10 when the
[1325]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 nextRNGStream []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 nextRNGSubStream[]\T1/ptm/m/n/10 , a value which can be as-signed to
[1326] [1327]) (./splines-pkg.tex [1328]
Chapter 9.
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[]\T1/ptm/m/n/10 Douglas M. Bates \T1/pcr/m/n/10 <bates@stat.wisc.edu> \T1/ptm/
m/n/10 and William N. Ven-ables
[1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336]
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 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height,  women, bSpl
ine = TRUE))[] 
[1337]
Underfull \hbox (badness 1043) in paragraph at lines 599--601
[]\T1/ptm/m/n/10 An in-te-ger be-tween 0 and []\T1/pcr/m/n/10 splineOrder(objec
t) - 1 []\T1/ptm/m/n/10 spec-i-fy-ing the
[1338] [1339]
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 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, 
sparse = TRUE)))[] 
[1340] [1341] [1342]) (./stats-pkg.tex
Chapter 10.
[1343]
Underfull \hbox (badness 1077) in paragraph at lines 71--74
[]\T1/pcr/m/n/10 .MFclass() []\T1/ptm/m/n/10 re-turns a char-ac-ter string, one
 of []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ordered"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "factor"[]\T1/ptm/m/n/10 ,
Overfull \hbox (69.18036pt too wide) in paragraph at lines 91--91
 []\T1/pcr/m/n/9 (xl <- .getXlevels(terms(mf), mf)) # a list with one entry " $
 Species" with 3 levels:[] 
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 []  \T1/pcr/m/n/9 identical(.getXlevels(terms(mc), mc), xl[0]) # a empty named
 list, as no factors[] 
[1344] [1345] [1346] [1347] [1348]
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 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea
rson Chi-square[] 
[1349]
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 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = 
FALSE) 
[1350] [1351] [1352] [1353] [1354] [1355]
Underfull \hbox (badness 1024) in paragraph at lines 901--903
[]\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/pcr/m/n/10 l
m []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for
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[1367]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1645--1645
 []          \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm 
= TRUE)[] 
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 []          \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm 
= TRUE)[] 
[1368] [1369]
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 []                 \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n
a.rm=na.)$y),[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 1807--1807
 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$y) # warning, can be avoided by
 specifying \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ties=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[
] 
[1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380]
[1381] [1382] [1383]
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 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F
ALSE) 
[1384] [1385] [1386] [1387]
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 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co
l = "green")[] 
[1388] [1389] [1390]
Underfull \hbox (badness 10000) in paragraph at lines 3281--3283
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo
geneity of
[1391]
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 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = 
FALSE)[] 
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 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = 
FALSE)[] 
[1392] [1393] [1394] [1395] [1396]
Package amsmath Warning: Foreign command \atopwithdelims;
(amsmath)                \frac or \genfrac should be used instead
(amsmath)                 on input line 3670.
[1397]
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 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = "
log density",[] 
[1398] [1399] [1400] [1401]
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 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit
df = 0) 
[1402] [1403] [1404] [1405] [1406]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4304--4304
 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
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 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
[1407] [1408] [1409]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4546--4546
 []\T1/pcr/m/n/9 chisq.test(x, p = p)            #               maybe doubtful
, but is ok![] 
[1410] [1411] [1412]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4721--4721
 []  \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df =
 df, ncp = L)),[] 
[1413]
Underfull \hbox (badness 3989) in paragraph at lines 4816--4823
[]\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 
(\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/
it/10 g[] \OT1/cmr/m/n/10 =
[1414] [1415] [1416]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 5044--5044
 []\T1/pcr/m/n/10 confint(object, parm, level = 0.95, trace = FALSE, test=c("LR
T", "Rao"), ...)[] 
[1417] [1418] [1419]
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 []\T1/pcr/m/n/9 constrOptim(c(-1.2,0.9), fr, grr, ui = rbind(c(-1,0), c(0,-1))
, ci = c(-1,-1))[] 
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 []\T1/pcr/m/n/9 constrOptim(c(.5,0), fr, grr, ui = rbind(c(-1,0), c(1,-1)), ci
 = c(-0.9,0.1))[] 
[1420] [1421] [1422]
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 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works
 with these :[] 
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 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil
ter")) 
[1423] [1424] [1425]
Underfull \hbox (badness 1436) in paragraph at lines 5670--5675
[]\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i
ng co-vari-ances
Underfull \hbox (badness 1377) in paragraph at lines 5670--5675
\T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi
-a-tion of)
Underfull \hbox (badness 1448) in paragraph at lines 5670--5675
\T1/ptm/m/n/10 one of the strings []\T1/pcr/m/n/10 "everything"[]\T1/ptm/m/n/10
 , []\T1/pcr/m/n/10 "all.obs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "complete.obs"
[]\T1/ptm/m/n/10 ,
[1426] [1427] [1428]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5871--5871
 []         \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE,
 ...)[] 
[1429] [1430] [1431]
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 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center =
 TRUE, 
[1432] [1433] [1434]
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 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter =
 NULL) 
[1435]
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 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en
v = parent.frame())[] 
[1436] [1437] [1438] [1439]
Underfull \hbox (badness 5954) in paragraph at lines 6593--6595
[]\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn
, see
[1440] [1441]
Underfull \hbox (badness 2503) in paragraph at lines 6674--6677
[]\T1/ptm/m/n/10 Objects of class []\T1/pcr/m/n/10 "hclust" []\T1/ptm/m/n/10 ca
n be con-verted to class []\T1/pcr/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing 
method
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[]\T1/pcr/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g
ram []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also
Underfull \hbox (badness 1655) in paragraph at lines 6681--6686
\T1/ptm/m/n/10 has []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y [
]\T1/ptm/m/n/10 (and op-tional fur-ther ar-gu-ments) as branches. Note that be-
fore \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.1.2,
Underfull \hbox (badness 7238) in paragraph at lines 6717--6720
[][][]\T1/pcr/m/n/10 dendrapply[][][] []\T1/ptm/m/n/10 for ap-ply-ing a func-ti
on to \T1/ptm/m/it/10 each \T1/ptm/m/n/10 node. [][][]\T1/pcr/m/n/10 order.dend
rogram[][][] []\T1/ptm/m/n/10 and
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6729--6729
 []\T1/pcr/m/n/9 str(dend1, max.level = 2, last.str =  "\TS1/pcr/m/n/9 '\T1/pcr
/m/n/9 ") # only the first two sub-levels[] 
[1442]
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 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, 
type = "tr")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6767--6767
 []\T1/pcr/m/n/9 ## merge() all parts back (using default \TS1/pcr/m/n/9 '\T1/p
cr/m/n/9 height\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 instead of original one):[] 
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 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h
oriz = TRUE)[] 
[1443] [1444] [1445] [1446]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 7067--7067
 []\T1/pcr/m/n/9 abline(h = 1/1022, v = range(x), lty=2); axis(2, at=1/1022, "1
/(2n-2)", las=1)[] 
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 []                     \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker
n = TRUE))))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1447]
[1448] [1449]
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[1451] [1452] [1453]
Underfull \hbox (badness 10000) in paragraph at lines 7472--7476
[]\T1/pcr/m/n/10 "maximum"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "manhattan"[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 "canberra"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "bi
nary" []\T1/ptm/m/n/10 or
[1454]
Underfull \hbox (badness 6493) in paragraph at lines 7574--7577
[]\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][]
\T1/pcr/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the
[1455] [1456]
Underfull \hbox (badness 10000) in paragraph at lines 7711--7714
[]\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/pcr/m/n/10 ht
tps : / / CRAN . R-[]project . org / view =
[1457] [1458] [1459] [1460] [1461] [1462]
Underfull \hbox (badness 10000) in paragraph at lines 8123--8128
[]\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences []
\T1/pcr/m/n/10 x[t][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 x[t-1][]\T1/ptm/m/n/10 ,
 ...,
[1463] [1464] [1465] [1466] [1467] [1468]
Underfull \hbox (badness 1210) in paragraph at lines 8478--8480
[]\T1/ptm/m/n/10 Components of []\T1/pcr/m/n/10 control []\T1/ptm/m/n/10 can al
so be sup-plied as named ar-gu-ments to
[1469] [1470] [1471] [1472] [1473] [1474]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 8946--8946
 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q
uasipoisson())[] 
[1475]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 8991--8991
 []\T1/pcr/m/n/9 ## Not run: glm(y ~ x, family = quasi(variance = "mu^3", link 
= "log")) # fails[] 
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 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit
"), start = c(0,1))[] 
[1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9574--9574
 []           \T1/pcr/m/n/9 dimnames = list(income = c("< 15k", "15-25k", "25-4
0k", "> 40k"),[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 9575--9575
 []                     \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod
erateS", "VeryS")))[] 
[1484] [1485] [1486]
Underfull \hbox (badness 7291) in paragraph at lines 9755--9757
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test 
of homogeneity of
[1487] [1488] [1489] [1490] [1491] [1492] [1493]
Underfull \hbox (badness 6944) in paragraph at lines 10248--10254
[][][]\T1/pcr/m/n/10 ftable.formula[][][] []\T1/ptm/m/n/10 for the for-mula in-
ter-face (which al-lows a []\T1/pcr/m/n/10 data = . []\T1/ptm/m/n/10 ar-gu-ment
);
[1494] [1495] [1496]
Underfull \hbox (badness 3758) in paragraph at lines 10462--10465
[]\T1/ptm/m/n/10 See also [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Incomplete _ gamma _ function$[][]\T1/ptm/m/n/10 , or
[1497] [1498] [1499] [1500]
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 []    \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL
, ...)[] 
Underfull \hbox (badness 4518) in paragraph at lines 10733--10738
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1501]
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[]\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth
od
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[]\T1/ptm/m/n/10 A spec-i-fi-ca-tion of the form []\T1/pcr/m/n/10 first:second 
[]\T1/ptm/m/n/10 in-di-cates the set of terms ob-tained by tak-
[1502]
Underfull \hbox (badness 10000) in paragraph at lines 10878--10881
[]\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][][]\T1/pcr/m/n/10 coeffic
ients[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 effects[]\T1/ptm/m/n/10 , []\T1/
pcr/m/n/10 fitted.values []\T1/ptm/m/n/10 and
[1503] [1504] [1505]
Underfull \hbox (badness 2142) in paragraph at lines 11095--11098
[]\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p
tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1
0 dev \OMS/cmsy/m/n/10 ^^@
[1506]
Underfull \hbox (badness 1708) in paragraph at lines 11176--11180
[]\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter-
na-tives are:
[1507]
Underfull \hbox (badness 10000) in paragraph at lines 11218--11224
[][][]\T1/pcr/m/n/10 glm[][][] []\T1/ptm/m/n/10 for com-put-ing []\T1/pcr/m/n/1
0 glm.obj[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 anova.glm[][][][]\T1/ptm/m/n/1
0 ; the cor-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions,
Underfull \hbox (badness 1418) in paragraph at lines 11256--11261
[]\T1/pcr/m/n/10 "average" []\T1/ptm/m/n/10 (= UP-GMA), []\T1/pcr/m/n/10 "mcqui
tty" []\T1/ptm/m/n/10 (= WPGMA), []\T1/pcr/m/n/10 "median" []\T1/ptm/m/n/10 (=
[1508] [1509]
Underfull \hbox (badness 2635) in paragraph at lines 11389--11392
\T1/ptm/m/n/10 There are [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/n/10 , [][
][]\T1/pcr/m/n/10 plot[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 identify []\
T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 identify.hclust[][][][]\T1/ptm/m/n/10 )
 meth-ods and the
[1510] [1511] [1512]
Underfull \hbox (badness 1694) in paragraph at lines 11572--11575
[]\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these 
de-fault to
[1513]
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 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col
SideColors = cc,[] 
[1514]
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 []            \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 
0.1),[] 
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[]\T1/ptm/m/n/10 Character string to se-lect an []\T1/pcr/m/n/10 "additive" []\
T1/ptm/m/n/10 (the de-fault) or
[1515] [1516] [1517] [1518] [1519]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12038--12038
 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4)
, DEV.FUN = nD)[] 
[1520]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.12053 \aliasA{hat}{influence.measures}{hat}
                                             
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 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA
LSE),[] 
[1521]
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 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE),
 ...)[] 
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[]\T1/ptm/m/n/10 The op-tional []\T1/pcr/m/n/10 infl[]\T1/ptm/m/n/10 , []\T1/pc
r/m/n/10 res []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sd []\T1/ptm/m/n/10 ar-gu-me
nts are there to en-cour-age the use of these di-
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[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists 
mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing
[1522] [1523] [1524] [1525]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12453--12453
 []                 \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = 
TRUE,[] 
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 []                 \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact
or)),[] 
[1526] [1527] [1528] [1529] [1530] [1531]
Underfull \hbox (badness 10000) in paragraph at lines 12785--12787
[]\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/pcr/m/n/10 solve.de
fault[][][] []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 SSinit =
Underfull \hbox (badness 4739) in paragraph at lines 12808--12810
[]\T1/ptm/m/n/10 the es-ti-mate at time $\OML/cmm/m/it/10 t \OMS/cmsy/m/n/10 ^^
@ \OT1/cmr/m/n/10 1$ \T1/ptm/m/n/10 of the state un-cer-tainty ma-trix $\OML/cm
m/m/it/10 Q$ \T1/ptm/m/n/10 (not up-dated by
[1532] [1533] [1534] [1535] [1536]
Underfull \hbox (badness 3417) in paragraph at lines 13121--13123
[]\T1/ptm/m/n/10 an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of class []\T1/pcr/
m/n/10 "kmeans"[]\T1/ptm/m/n/10 , typ-i-cally the re-sult []\T1/pcr/m/n/10 ob [
]\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 ob <-
Underfull \hbox (badness 2894) in paragraph at lines 13127--13131
[]\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f
ault method
Underfull \hbox (badness 1038) in paragraph at lines 13127--13131
\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 "Hartigan-Wong"[]\T1/ptm/m/n/10 ): if pos-i-ti
ve (or true), trac-ing in-for-ma-tion on the
[1537] [1538] [1539] [1540] [1541] [1542]
Underfull \hbox (badness 1496) in paragraph at lines 13555--13561
[]\T1/ptm/m/n/10 Gunar Schr�er and Di-et-rich Tren-kler (1995). Ex-act and Ran-
dom-iza-tion Dis-tri-bu-tions of
[1543] [1544] [1545] [1546]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13810--13810
 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c
ol = "gold")[] 
[1547]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13910--13910
 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep
t", "slope"))[] 
[1548]
Underfull \hbox (badness 4518) in paragraph at lines 13958--13963
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1549] [1550] [1551]
Underfull \hbox (badness 10000) in paragraph at lines 14158--14162
[]\T1/ptm/m/n/10 More []\T1/pcr/m/n/10 lm() []\T1/ptm/m/n/10 ex-am-ples are ava
il-able e.g., in [][][]\T1/pcr/m/n/10 anscombe[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 attitude[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 freeny[][][]
[]\T1/ptm/m/n/10 ,
[1552] [1553] [1554] [1555] [1556]
Underfull \hbox (badness 1163) in paragraph at lines 14500--14508
\T1/ptm/m/n/10 els, [][][]\T1/pcr/m/n/10 influence[][][] []\T1/ptm/m/n/10 (etc 
on that page) for re-gres-sion di-ag-nos-tics, [][][]\T1/pcr/m/n/10 weighted.re
siduals[][][][]\T1/ptm/m/n/10 ,
[1557] [1558]
Underfull \hbox (badness 4518) in paragraph at lines 14620--14625
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1559] [1560]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 14810--14810
 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 14811--14811
 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1561] [1562] [1563] [1564] [1565]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15154--15154
 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15155--15155
 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
[1566] [1567]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 15248--15248
 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra
nge(x))) 
[1568] [1569] [1570] [1571] [1572] [1573]
Underfull \hbox (badness 2726) in paragraph at lines 15657--15660
[]\T1/ptm/m/n/10 character; one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , [
]\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cauchit"[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 "cloglog"[]\T1/ptm/m/n/10 ,
[1574]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15751--15751
 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i
n R <= 3.5.0[] 
[1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 16381--16381
 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc
gp, data = esoph) 
[1585] [1586]
Underfull \hbox (badness 1490) in paragraph at lines 16530--16535
\T1/ptm/m/n/10 those spec-i-fied in []\T1/pcr/m/n/10 ... []\T1/ptm/m/n/10 which
 are re-cy-cled to the num-ber of data frame rows. Un-like
[1587]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 16566--16566
 []\T1/pcr/m/n/9 model.frame(dist ~ speed, data = cars, subset = speed < 10, z 
= log(dist))[] 
Underfull \hbox (badness 1648) in paragraph at lines 16602--16604
[]\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][
][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject,
[1588]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 16687--16687
 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum"
, b = contr.poly))[] 
[1589]
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 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con
tr.helmert"))[] 
[1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17243--17243
 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3))  # does not affect objects
 with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] 
[1598] [1599] [1600]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17476--17476
 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, 
s, prob = 0.4)),[] 
[1601] [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610]
Underfull \vbox (badness 10000) has occurred while \output is active [1611]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 18196--18196
 []\T1/pcr/m/n/9 ## adjusting the convergence test by adding \TS1/pcr/m/n/9 '\T
1/pcr/m/n/9 scaleOffset\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 to its denominator RSS:[]
 
Underfull \vbox (badness 10000) has occurred while \output is active [1612]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 18215--18215
 []\T1/pcr/m/n/9 ## Here, requiring close convergence, must use more accurate n
umerical differentiation,[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 18216--18216
 []\T1/pcr/m/n/9 ## as this typically gives Error: "step factor .. reduced belo
w \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 minFactor\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 .."[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 18220--18220
 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co
nverging on *some*):[] 
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 []\T1/pcr/m/n/9 ctr2 <- nls.control(nDcentral=TRUE, tol = 8e-8, # <- even smal
ler than above[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 18224--18224
 []        \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl
("^NixOS", osVersion)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18256--18256
 []              \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21
), th = b[1]))[] 
[1613] [1614] [1615]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18432--18432
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi
ty), DNase.2)[] 
[1616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18479--18479
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18526--18526
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
[1617] [1618] [1619] [1620]
Overfull \hbox (102.78088pt too wide) in paragraph at lines 18743--18743
 []             \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els
e 2), central = FALSE)[] 
[1621] [1622] [1623] [1624] [1625]
Underfull \hbox (badness 1248) in paragraph at lines 19062--19065
[]\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma
-tion to the gra-di-ent, on
Underfull \hbox (badness 1661) in paragraph at lines 19075--19079
[]\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i
t is un-able to re-duce
Underfull \hbox (badness 1478) in paragraph at lines 19083--19087
\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 control$trace []\T1/ptm/m/n/10 is pos-i-tive
. De-faults to ev-ery 10 it-er-a-tions for []\T1/pcr/m/n/10 "BFGS" []\T1/ptm/m/
n/10 and
[1626]
Underfull \hbox (badness 2042) in paragraph at lines 19141--19143
[]\T1/ptm/m/n/10 indicates an er-ror from the []\T1/pcr/m/n/10 "L-BFGS-B" []\T1
/ptm/m/n/10 method; see com-po-nent
[1627]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 19247--19247
 []      \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no
t* at boundary[] 
[1628]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19290--19290
 []     \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", 
axes = FALSE)[] 
Overfull \hbox (123.1803pt too wide) in paragraph at lines 19308--19308
 []\T1/pcr/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b
ut NM may be ok and "unavoidable",[] 
Overfull \hbox (96.18033pt too wide) in paragraph at lines 19311--19311
 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list(
warn.1d.NelderMead = FALSE)))[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 19331--19331
 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max
(interval), 
[1629]
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 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max
(interval),[] 
Underfull \hbox (badness 2564) in paragraph at lines 19369--19380
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 f []\T1/ptm/m/n/10 is never eva
l-u-ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m
/n/10 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/
10 tol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1082) in paragraph at lines 19369--19380
\T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately 
[]\T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) []\T1/ptm/m/n/10 and $\OML
/cmm/m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa
[1630]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19432--19432
 []\T1/pcr/m/n/9 f  <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 
1)), 10), 10)[] 
[1631] [1632] [1633]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19662--19662
 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 
1, lty = 1:6,[] 
[1634] [1635]
Underfull \hbox (badness 1337) in paragraph at lines 19773--19776
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1636] [1637] [1638] [1639] [1640]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20091--20091
 []      \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 
1.5),[] 
[1641] [1642]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 20178--20178
 []       \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s dist
 vs Leverage* " * h[ii] / (1 - h[ii]))),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 20180--20180
 []              \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else 
points,[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 20182--20182
 []     \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact
ive(),[] 
[1643]
Underfull \hbox (badness 10000) in paragraph at lines 20242--20248
\T1/pcr/m/n/10 "bottomleft", legend = "Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s di
stance", lty = cook.lty,
Underfull \hbox (badness 10000) in paragraph at lines 20242--20248
\T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp
Underfull \hbox (badness 10000) in paragraph at lines 20250--20256
[]\T1/ptm/m/n/10 the num-ber of ro-bust-ness it-er-a-tions, the ar-gu-ment []\T
1/pcr/m/n/10 iter []\T1/ptm/m/n/10 in
Underfull \hbox (badness 10000) in paragraph at lines 20261--20264
[]\T1/ptm/m/n/10 a nu-meric vec-tor of length 1 or 2, to be used in []\T1/pcr/m
/n/10 ylim <-
[1644] [1645] [1646] [1647]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 20528--20528
 []\T1/pcr/m/n/9 nlmod <- nls(y ~  Const + A * exp(B * x), start=list(Const=100
, A=10, B=1))[] 
[1648] [1649]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20659--20659
 []                    \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3,
 ...)[] 
[1650]
Underfull \hbox (badness 1194) in paragraph at lines 20669--20672
[]\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting
 of the con-fi-dence
[1651]
Underfull \hbox (badness 1107) in paragraph at lines 20727--20729
[]\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate []
\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . De-faults to
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20782--20782
 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange
") # all colors[] 
[1652]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 20789--20789
 []\T1/pcr/m/n/9 legend(2.5, 1.9, paste("f =", c(0, 0.2, 1)), col = 1:3, lty = 
1, y.intersp = 1)[] 
[1653]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20883--20883
 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma
r..., oma...)")[] 
[1654] [1655]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 21011--21011
 []    \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE)  # no 
cancellation[] 
[1656]
Underfull \hbox (badness 7740) in paragraph at lines 21074--21076
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Exact Poisson test" [
]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 "Comparison of
[1657]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 21122--21122
 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = 
FALSE) 
Underfull \hbox (badness 10000) in paragraph at lines 21178--21180
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 poly(*, simple=TRUE)[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 polym(*, coefs=<non-NULL>)[]\T1/ptm/m/n/10 , and
[1658]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 21215--21215
 [] \T1/pcr/m/n/9 zm <- zapsmall(polym (    1:4, c(1, 4:6),  degree = 3)) # or 
just poly():[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 21220--21220
 []\T1/pcr/m/n/9 ## poly(<matrix>, df) --- used to fail till July 14 (vive la F
rance!), 2017:[] 
[1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669]
[1670] [1671]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 22074--22074
 []          \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e
xactly equal typically[] 
[1672]
Underfull \hbox (badness 6859) in paragraph at lines 22141--22148
[][][]\T1/pcr/m/n/10 predict.glm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p
redict.lm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.loess[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.nls[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 predict.poly[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 22152--22158
[]\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/pcr/m/n/10 predict.ar[
][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 ,
[1673] [1674] [1675] [1676] [1677]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 22440--22440
 []        \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N
A", "NAwarn"),[] 
Underfull \hbox (badness 10000) in paragraph at lines 22466--22469
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string
 spec-i-fy-ing what should hap-pen in the
Underfull \hbox (badness 10000) in paragraph at lines 22466--22469
\T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob
ject$rank <
[1678]
Underfull \hbox (badness 5832) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 cases, i.e., vec-tors not in the same pre-dic-tor sub-space as t
he
Underfull \hbox (badness 8151) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 orig-i-nal data (with tol-er-ance []\T1/pcr/m/n/10 tol[]\T1/ptm/
m/n/10 ). In that case, the non-
Underfull \hbox (badness 1184) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 estimable in-dices are also re-turned as at-tribute []\T1/pcr/m/
n/10 "non-estim" []\T1/ptm/m/n/10 (see
[1679] [1680] [1681] [1682] [1683] [1684] [1685]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 22939--22939
 []         \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign
 = TRUE, ...)[] 
[1686] [1687] [1688] [1689]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 23223--23223
 []             \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x
)) &&[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 23224--23224
 []                          \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr("
, "p-v"),[] 
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Underfull \hbox (badness 1337) in paragraph at lines 23628--23634
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1697] [1698] [1699] [1700] [1701]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 23940--23940
 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim
 = c(-31, 31),[] 
[1702] [1703] [1704] [1705]
Underfull \hbox (badness 10000) in paragraph at lines 24253--24255
[]\T1/ptm/m/n/10 Wicklin, R. (2017) Sam-ple quan-tiles: A com-par-i-son of 9 de
f-i-ni-tions;
Underfull \hbox (badness 10000) in paragraph at lines 24253--24255
\T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co
ntent / iml / 2017 / 05 / 24 /
Underfull \hbox (badness 10000) in paragraph at lines 24256--24257
[]\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or
g / wiki / Quantile # Estimating _
[1706] [1707]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 24367--24367
 []       \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact"
, "compact"),[] 
[1708]
Underfull \hbox (badness 1028) in paragraph at lines 24425--24428
[]\T1/ptm/m/n/10 further ar-gu-ments to be passed to or from meth-ods; for []\T
1/pcr/m/n/10 write() []\T1/ptm/m/n/10 and
[1709] [1710]
Underfull \hbox (badness 10000) in paragraph at lines 24540--24543
[]\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by
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[]\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 reorder[][][]()[]\T1/ptm/m/n/10 
, is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l
evels =
[1711]
Underfull \hbox (badness 7099) in paragraph at lines 24659--24661
[]\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 relevel[][][]()[]\T1/ptm/m/n/10 
, is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l
evels =
[1712]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24694--24694
 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, 
decreasing=TRUE))[] 
[1713]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24770--24770
 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 
10:1, mean)")[] 
[1714] [1715]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 24887--24887
 []\T1/pcr/m/n/10 #         varying = ___,  # list / matrix / vector (use with 
care)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 24888--24888
 []\T1/pcr/m/n/10 #         v.names = ___,  # vector of variable names in long 
format[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 24889--24889
 []\T1/pcr/m/n/10 #         timevar, times, # name / values of constructed time
 variable[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 24890--24890
 []\T1/pcr/m/n/10 #         idvar, ids)     # name / values of constructed id v
ariable[] 
[1716] [1717]
Underfull \hbox (badness 10000) in paragraph at lines 25047--25052
[][][]\T1/pcr/m/n/10 stack[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 aperm[]
[][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 relist[][][] []\T1/ptm/m/n/10 for r
e-shap-ing the re-sult of [][][]\T1/pcr/m/n/10 unlist[][][][]\T1/ptm/m/n/10 . [
][][]\T1/pcr/m/n/10 xtabs[][][] []\T1/ptm/m/n/10 and
Underfull \hbox (badness 2495) in paragraph at lines 25047--25052
[][][]\T1/pcr/m/n/10 as.data.frame.table[][][] []\T1/ptm/m/n/10 for cre-at-ing 
con-tin-gency ta-bles and con-vert-ing them back to
[1718]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 25058--25058
 []\T1/pcr/m/n/9 ## long to wide (direction = "wide") requires idvar and timeva
r at a minimum[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 25059--25059
 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev
ar = "time")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 25078--25078
 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide
", v.names = "x")[] 
[1719]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 25183--25183
 []       \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na.
omit", "fail"),[] 
[1720]
Underfull \hbox (badness 1033) in paragraph at lines 25226--25232
\T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 
where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/
m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where
Underfull \hbox (badness 10000) in paragraph at lines 25247--25250
[]\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/pcr/m/n/10 y = r
unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/pcr/m/n/10 y[j] =
[1721]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 25325--25325
 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi
ans Example")[] 
[1722]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 25351--25351
 []\T1/pcr/m/n/9 ## An example with initial NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s -
 used to fail badly (notably for "Turlach"):[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 25363--25363
 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1
:5, xlab = NA,[] 
[1723] [1724] [1725] [1726] [1727] [1728] [1729]
Underfull \hbox (badness 6268) in paragraph at lines 25822--25827
[][][]\T1/pcr/m/n/10 SSasympOrig[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 S
Sbiexp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfol[][][][]\T1/ptm/m/n/10
 , [][][]\T1/pcr/m/n/10 SSfpl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSgo
mpertz[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSlogis[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 SSmicmen[][][][]\T1/ptm/m/n/10 ,
[1730] [1731] [1732] [1733]
Underfull \hbox (badness 1867) in paragraph at lines 26032--26034
[]\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. 
Passed to
Underfull \hbox (badness 10000) in paragraph at lines 26048--26052
[]\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 NN <- [][]nobs[][][](object, use.fallba
ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 PP
Underfull \hbox (badness 10000) in paragraph at lines 26048--26052
\T1/pcr/m/n/10 <- sum(!is.na([][]coef[][][](object))) []\T1/ptm/m/n/10 -- where
 in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was
Overfull \hbox (20.58041pt too wide) in paragraph at lines 26090--26090
 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165  = "Residual standard error"  printed fr
om summary(lm1)[] 
[1734]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 26097--26097
 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole
rance=1e-15))[] 
[1735] [1736]
Underfull \hbox (badness 2495) in paragraph at lines 26279--26288
[]\T1/ptm/m/n/10 For an in-verse gaus-sian GLM the model as-sumed is $\OML/cmm/
m/it/10 IG\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 ^^V[]; ^^Uw[]\OT1/cmr/m/n/10 )$ \T1
/ptm/m/n/10 (see [][]$\T1/pcr/m/n/10 https : / / en .
[1737] [1738] [1739]
Underfull \hbox (badness 2197) in paragraph at lines 26425--26428
[]\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion,
 []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and
Overfull \hbox (24.78088pt too wide) in paragraph at lines 26445--26445
 []       \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends
 = FALSE)[] 
Underfull \hbox (badness 1412) in paragraph at lines 26452--26454
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui
red; de-faults to
[1740]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 26537--26537
 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS
S"), smooth(x)))[] 
[1741]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 26562--26562
 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda 
= NULL, cv = FALSE, 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 26565--26565
 []              \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee
p.stuff = FALSE)[] 
[1742] [1743] [1744]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 26790--26790
 []    \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t
ol) ))[] 
Underfull \hbox (badness 2547) in paragraph at lines 26794--26800
[]\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/
10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in
g only
Overfull \hbox (4.38043pt too wide) in paragraph at lines 26841--26841
 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars)  &  smoothi
ng splines")[] 
[1745]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 26862--26862
 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # =
= unique(cars$speed)[] 
[1746] [1747] [1748]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 27054--27054
 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na.
fail, 
[1749] [1750] [1751] [1752]
Underfull \hbox (badness 10000) in paragraph at lines 27319--27324
\T1/ptm/m/n/10 This makes the spec-tral den-sity a den-sity over the range []\T
1/pcr/m/n/10 (-frequency(x)/2,
[1753] [1754]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 27433--27433
 []          \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC"
, "hyman"),[] 
[1755] [1756]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 27615--27615
 []\T1/pcr/m/n/9 set.seed(8); x <- sort(round(rnorm(30), 1)); y <- round(sin(pi
 * x) + rnorm(30)/10, 3)[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 27621--27621
 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean))  
for when x has ties")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 27630--27630
 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "monoH.FC")(x), add = TRUE, c
ol = 3, n = 1001)[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 27631--27631
 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman")   (x), add = TRUE, c
ol = 4, n = 1001)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1757]
Underfull \hbox (badness 2922) in paragraph at lines 27700--27705
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1758]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 27737--27737
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5.2), xlim
 = c(-.3, 5),[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 27740--27740
 []                    \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^
{-e^{phi[3]}*~x}}))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 27749--27749
 []         \T1/pcr/m/n/9 c(0  ,  1   ), 1, length = 0.08, angle = 25); text(0.
5, 1, quote(1))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 27750--27750
 []  \T1/pcr/m/n/9 y0 <- 1 + 4*exp(-3/4) ; t.5 <- log(2) / exp(-3/4) ; AR2 <- 3
 # (Asym + R0)/2[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 27754--27754
 []  \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi
[1]+phi[2],2), phi[1]),[] 
[1759]
Underfull \hbox (badness 3240) in paragraph at lines 27808--27811
[][][]\T1/pcr/m/n/10 nls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 selfStart
[][][][]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 example(SSasympOff) []\T1/ptm/m/n/10 
gives graph show-ing the []\T1/pcr/m/n/10 SSasympOff
[1760]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 27829--27829
 []  \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOff(xx, Asym = 5, lrc = log(
0.4), c0 = 3/4)) )[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27832--27832
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim
 = c(-1, 8),[] 
[1761]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27915--27915
 []  \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOrig(xx, Asym = 5, lrc = log
(log(2)))) )[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27919--27919
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim =
 c(-1/4, 5),[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 27929--27929
 []  \T1/pcr/m/n/9 axis(2, at = 5*c(1/2,1), labels= expression(frac(phi[1],2), 
phi[1]), pos=0, las=1)[] 
Overfull \hbox (106.98032pt too wide) in paragraph at lines 27934--27934
 []       \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5]
 == frac(log(2), e^{phi[2]})}),[] 
[1762]
Underfull \hbox (badness 2922) in paragraph at lines 27970--27976
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27992--27992
 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat
a = Indo.1),[] 
[1763]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28008--28008
 []  \T1/pcr/m/n/9 legend("topright", c("y1+y2", "y1 = 3.5 * exp(-4*x)", "y2 = 
1.5 * exp(-x)"),[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 28022--28022
 []\T1/pcr/m/n/9 ## Fails by default (scaleOffset=0) on most platforms {also af
ter increasing maxiter !}[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28024--28024
 []        \T1/pcr/m/n/9 nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d
atN, trace=TRUE)[] 
Overfull \hbox (128.58029pt too wide) in paragraph at lines 28030--28030
 []            \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=
1e-11, nDcentral=TRUE), trace=TRUE)[] 
[1764] [1765]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 28141--28141
 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK
a)*input)) 
[1766]
Underfull \hbox (badness 2922) in paragraph at lines 28203--28208
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1767]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 28241--28241
 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm
id", phi[4] == "scal")))[] 
Underfull \hbox (badness 2922) in paragraph at lines 28290--28295
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1768]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28321--28321
 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = "
red", lwd=2)[] 
Underfull \hbox (badness 2922) in paragraph at lines 28355--28360
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1769]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28380--28380
 []\T1/pcr/m/n/9 ## Initial values are in fact the converged one here, "Number 
of iter...: 0" :[] 
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 []\T1/pcr/m/n/9 fm2 <- update(fm1, control=nls.control(tol = 1e-9, warnOnly=TR
UE), trace = TRUE)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28404--28404
 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] 
== "scal")))[] 
[1770]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 28414--28414
 []  \T1/pcr/m/n/9 segments(c(2,2.6,2.6), c(0,  2.5,3.5),   # NB.  SSlogis(x = 
xmid = 2) = 2.5[] 
Underfull \hbox (badness 2922) in paragraph at lines 28449--28454
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28471--28471
 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt),
 digits = 3)[] 
[1771]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 28489--28489
 []       \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS
micmen model")[] 
[1772]
Underfull \hbox (badness 6493) in paragraph at lines 28541--28546
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 x[]\
T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28569--28569
 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28571--28571
 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 28575--28575
 []\T1/pcr/m/n/9 plot(weight ~ Time, Chick.6, xlim = c(0, 21), main = "SSweibul
l() fit to Chick.6")[] 
Overfull \hbox (69.18036pt too wide) in paragraph at lines 28578--28578
 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f
m1)[["Drop"]]), lty = 3)[] 
[1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783]
[1784] [1785] [1786]
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[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.glm"[]\T1/ptm/m/
n/10 , usu-ally, a re-sult of a call to
[1787] [1788] [1789]
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[]\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1
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[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.nls"[]\T1/ptm/m/
n/10 , usu-ally the re-sult of a call to
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[]\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1
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 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t
race = FALSE) 
[1794] [1795]
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[]\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m
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[1797]
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[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1798] [1799] [1800] [1801]
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 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, 
main = t.tit,[] 
[1802]
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mon",[] 
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[]\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial
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[1803]
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 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s
pan.smth = 1/4)[] 
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 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = 
TRUE,[] 
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- nrow)[] 
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[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 toeplitz(x, *)[]\T1/ptm/m/n/10 : the firs
t col-umn of the Toeplitz ma-trix; for
[1809]
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 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex .
.) {also warning}:[] 
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 []   \T1/pcr/m/n/9 colnames(W) <- paste0(",", if(n <= 9) 1:n else c(1:9, lette
rs[seq_len(n-9)]))[] 
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 []\T1/pcr/m/n/9 y.hat <- W. %*% y # y.hat := smoothed(y) ("mass preserving" ->
 longer than y)[] 
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 []\T1/pcr/m/n/9 plot(x,y, type="b", xlim=c(1,m)); curve(f(x), 1,n, col="gray",
 lty=2, add=TRUE)[] 
[1810]
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else "ts",[] 
[1811]
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[]\T1/pcr/m/n/10 is.mts(x) []\T1/ptm/m/n/10 tests if an ob-ject []\T1/pcr/m/n/1
0 x []\T1/ptm/m/n/10 is a mul-ti-vari-ate time se-ries, i.e., ful-fills []\T1/p
cr/m/n/10 is.ts(x)[]\T1/ptm/m/n/10 ,
[1812] [1813] [1814] [1815] [1816]
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 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE) 
[1817]
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 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
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[1818] [1819] [1820] [1821]
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v = FALSE,[] 
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 = 0)[] 
[1822] [1823]
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s: --------------[] 
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 []\T1/pcr/m/n/9 ## where as  \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 extendInt="yes"\TS1
/pcr/m/n/9 '  \T1/pcr/m/n/9 simply first enlarges the search interval:[] 
[1824] [1825] [1826] [1827]
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[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
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[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1836] [1837] [1838]
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 []\T1/pcr/m/n/9 wilcox.test( 4:2,      3:1,     paired=TRUE) # Warning:  canno
t compute exact p-value with ties[] 
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 []\T1/pcr/m/n/9 wilcox.test((4:2)/10, (3:1)/10, paired=TRUE, digits.rank = 9) 
# same ties as (4:2, 3:1)[] 
[1839] [1840]
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 = getOption("ts.eps"), ...)[] 
[1841]
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ALSE, 
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 []      \T1/pcr/m/n/10 exclude = if(!addNA) c(NA, NaN), drop.unused.levels = F
ALSE)[] 
[1842] [1843] [1844] [1845]) (./stats4-pkg.tex [1846]
Chapter 11.
[1847] [1848] [1849]
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 []    \T1/pcr/m/n/9 -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/exp(lxhalf))
, log = TRUE))[] 
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er to 0 and 1[] 
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ntifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored
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                                                   [1855] [1856] [1857])
(./tcltk-pkg.tex [1858]
Chapter 12.
[1859] [1860] [1861] [1862] [1863]
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 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca
llback ref in here[] 
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[]\T1/pcr/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i
ng any Tk or Tcl com-mand by sim-ply run-ning
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 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0.
0", "end"))))[] 
[1873] [1874] [1875] [1876] [1877]
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[][][]\T1/pcr/m/n/10 select.list[][][] []\T1/ptm/m/n/10 (a text ver-sion ex-cep
t on Win-dows and the ma-cOS GUI), [][][]\T1/pcr/m/n/10 menu[][][] []\T1/ptm/m/
n/10 (whose
[1878]) (./tools-pkg.tex
Chapter 13.
[1879]
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 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for
 new methods.[] 
[1880]
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[]\T1/pcr/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will
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[1881]
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ing warning)[] 
[1882]
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[]\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t
o ren-der each of the 12
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\T1/ptm/m/n/10 types of bib-li-o-graphic en-try sup-ported by [][][]\T1/pcr/m/n
/10 bibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-
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\T1/ptm/m/n/10 tines de-scribed be-low. The for-mer must be named []\T1/pcr/m/n
/10 formatArticle[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 formatBook[]\T1/ptm/m/n/10
 ,
[1883]
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ngle = TRUE, 
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[]\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin
e to use. Over-rides any
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\T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s
ub-di-rec-tory
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\T1/ptm/m/n/10 by \T1/pcr/m/n/10 \donttest\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \dont
diff \T1/ptm/m/n/10 or \T1/pcr/m/n/10 \dontshow\T1/ptm/m/n/10 , and \T1/pcr/m/n
/10 \title \T1/ptm/m/n/10 re-placed by \T1/pcr/m/n/10 \section \T1/ptm/m/n/10 o
r
[1892]
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xz"),[] 
[1893]
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 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co
mpress == "none")[] 
[1894] [1895] [1896]
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E, ...)[] 
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 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU
E, ...)[] 
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[]\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v
erse de-pen-den-cies
[1897]
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[]\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a 
pre-vi-ous
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[]\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-
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\T1/ptm/m/n/10 ing []\T1/pcr/m/n/10 summarize_check_packages_in_dir_results []\
T1/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 check_packages_in_dir []\T1/ptm/m/n/10 re-turns an ob-ject in-
her-it-ing from class
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[]\T1/pcr/m/n/10 codocClasses []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 codocData [
]\T1/ptm/m/n/10 re-turn ob-jects of class []\T1/pcr/m/n/10 "codocClasses" []\T1
/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 CRAN_package_db() []\T1/ptm/m/n/10 re-turns a data frame with 
char-ac-ter columns con-tain-ing most
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\T1/ptm/m/n/10 `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' meta-data for the cu
r-rent pack-ages in the CRAN pack-age repos-i-
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\T1/ptm/m/n/10 tory, in-clud-ing in par-tic-u-lar the De-scrip-tion and Main-ta
iner in-for-ma-tion not pro-vided by
[1903]
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[]\T1/ptm/m/n/10 Internal func-tions []\T1/pcr/m/n/10 CRAN_aliases_db[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CR
AN_current_db []\T1/ptm/m/n/10 and
[1904]
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hances"))[] 
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
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\T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1
0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor,
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 loadPkgRdMacros []\T1/ptm/m/n/10 func-tio
n first looks for an []\T1/pcr/m/n/10 "RdMacros" []\T1/ptm/m/n/10 en-try in the
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[1913]
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[]\T1/ptm/m/n/10 Package main-tain-ers can use these func-tions to em-ploy user
 and site spe-cific com-pi-la-
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\T1/ptm/m/n/10 tion set-tings also for com-pi-la-tions not us-ing \T1/phv/m/n/1
0 R\T1/ptm/m/n/10 's mech-a-nisms (in par-tic-u-lar, cus-tom com-
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\T1/ptm/m/n/10 pi-la-tions in sub-di-rec-to-ries of `\T1/pcr/m/n/10 src\T1/ptm/
m/n/10 '), e.g., by adding con-fig-ure code call-ing \T1/phv/m/n/10 R \T1/ptm/m
/n/10 with
[1914]
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\T1/ptm/m/n/10 This al-lows e.g. the trans-la-tions shipped in \T1/phv/m/n/10 R
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[]\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca
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[1915]
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[]\T1/ptm/m/n/10 The de-fault method of []\T1/pcr/m/n/10 as.Rconcordance []\T1/
ptm/m/n/10 searches for strings match-ing the pat-tern of
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[]\T1/pcr/m/n/10 followConcordance []\T1/ptm/m/n/10 is used when a file is tran
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\T1/ptm/m/n/10 trans-for-ma-tion records a con-cor-dance in the file which is r
ead as []\T1/pcr/m/n/10 prevConcordance[]\T1/ptm/m/n/10 .
[1916]
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ong", 
[1917]
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
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\T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1
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 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster"
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[1918]
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 []    \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations
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[1919] [1920] [1921] [1922]
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[1923]
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[]\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion 3.2.0, User-d
efined macros may be given in a sep-a-rate file us-ing
[1924]
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ml", pkg)),[] 
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athjax-config.js"),[] 
[1925] [1926] [1927]
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NULL) 
[1928]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 3314--3314
 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = 
NULL)[] 
[1929] [1930] [1931]
Underfull \hbox (badness 1072) in paragraph at lines 3516--3518
[]\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-
tor of links, as re-turned by
[1932] [1933] [1934] [1935] [1936]
Overfull \hbox (72.78088pt too wide) in paragraph at lines 3851--3851
 []             \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro
s", "system.Rd"))[] 
Underfull \hbox (badness 5417) in paragraph at lines 3889--3899
[]\T1/ptm/m/n/10 By de-fault, the tags \T1/pcr/m/n/10 \S3method\T1/ptm/m/n/10 ,
 \T1/pcr/m/n/10 \S4method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \command\T1/ptm/m/n/10
 , \T1/pcr/m/n/10 \docType\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \email\T1/ptm/m/n/10 
,
[1937] [1938] [1939]
Underfull \hbox (badness 4108) in paragraph at lines 4103--4110
[]\T1/ptm/m/n/10 This func-tion starts the in-ter-nal HTTP server, which runs o
n the loop-back in-ter-face
[1940] [1941]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4204--4204
 []                      \T1/pcr/m/n/10 types = c("examples", "tests", "vignett
es"),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 4207--4207
 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter
net", "all"),[] 
Underfull \hbox (badness 10000) in paragraph at lines 4232--4234
[]\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run
,
[1942]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4287--4287
 []\T1/pcr/m/n/9 (prio <- sapply(as.vector(pNms), packageDescription, fields = 
"Priority"))[] 
[1943] [1944]
Underfull \hbox (badness 7832) in paragraph at lines 4388--4391
[]\T1/ptm/m/n/10 Where sup-ported ([]\T1/pcr/m/n/10 texi2dvi []\T1/ptm/m/n/10 5
.0 and later; []\T1/pcr/m/n/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op-ti
on
[1945] [1946] [1947]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4623--4623
 []  \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry
run),[] 
[1948] [1949] [1950]
Underfull \hbox (badness 10000) in paragraph at lines 4807--4810
[]\T1/ptm/m/n/10 optional char-ac-ter strings for the `[]\T1/pcr/m/n/10 Copyrig
ht[]\T1/ptm/m/n/10 ' and
Underfull \hbox (badness 6859) in paragraph at lines 4823--4828
[]\T1/ptm/m/n/10 All ex-ist-ing files in di-rec-tory []\T1/pcr/m/n/10 po []\T1/
ptm/m/n/10 with names `\T1/pcr/m/n/10 R-\T1/ptm/m/sl/10 lang\T1/pcr/m/n/10 .po\
T1/ptm/m/n/10 ' are up-dated from
Underfull \hbox (badness 1184) in paragraph at lines 4831--4837
[]\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/pcr/m/n/10 po
/\T1/ptm/m/sl/10 pkgname\T1/pcr/m/n/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. T
he
Underfull \hbox (badness 2941) in paragraph at lines 4831--4837
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in t
he pack-age are ex-am-ined to cre-ate a file
[1951] [1952] [1953] [1954]
Underfull \hbox (badness 10000) in paragraph at lines 5065--5067
[]\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 vignetteEngine[][][][]\T1/ptm/m/n/10 
, such as []\T1/pcr/m/n/10 "utils::Sweave" []\T1/ptm/m/n/10 or
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5094--5094
 []               \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F
ALSE,[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 5095--5095
 []               \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr
ess = "xz",[] 
[1955]
Underfull \hbox (badness 3240) in paragraph at lines 5108--5111
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T
1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/10 ',
Underfull \hbox (badness 1742) in paragraph at lines 5112--5122
[]\T1/pcr/m/n/10 "Package"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Version"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "Priority"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Depe
nds"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Imports"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1127) in paragraph at lines 5150--5156
[]\T1/pcr/m/n/10 write_PACKAGES []\T1/ptm/m/n/10 scans the named di-rec-tory fo
r R pack-ages, ex-tracts in-for-ma-tion from
Underfull \hbox (badness 1635) in paragraph at lines 5150--5156
\T1/ptm/m/n/10 each pack-age's `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file
, and writes this in-for-ma-tion into the `\T1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/1
0 ',
[1956]
Underfull \hbox (badness 1571) in paragraph at lines 5178--5182
[]\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down-
load speed and time spent by
Underfull \hbox (badness 2772) in paragraph at lines 5204--5209
\T1/ptm/m/n/10 and `\T1/pcr/m/n/10 PACKAGES.gz\T1/ptm/m/n/10 ' files. See [][][
]\T1/pcr/m/n/10 update_PACKAGES[][][] []\T1/ptm/m/n/10 for ef-fi-ciently up-dat
-ing ex-ist-ing
[1957] [1958]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5342--5342
 []  \T1/pcr/m/n/9 "    stop(errorCondition(gettext(\TS1/pcr/m/n/9 '\T1/pcr/m/n
/9 needs Deep Thought\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), class=\TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 myError\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ))",[] 
[1959]) (./utils-pkg.tex [1960]
Chapter 14.
Underfull \hbox (badness 1072) in paragraph at lines 47--52
[]\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[]
\T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ',
[1961] [1962] [1963] [1964]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 260--260
 []\T1/pcr/m/n/9 find("cor", numeric = TRUE)                     # numbers with
 these names[] 
[1965] [1966]
Underfull \hbox (badness 10000) in paragraph at lines 378--383
\T1/ptm/m/n/10 are []\T1/pcr/m/n/10 c("vertical", "horizontal", "cascade", "min
imize",
Underfull \hbox (badness 10000) in paragraph at lines 384--386
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 of win-dow 
han-dles, by de-fault pro-duced by
[1967]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 450--450
 []\T1/pcr/m/n/9 # This default is useful only in SDI mode:  it will tile any F
irefox window[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 452--452
 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("",
 "Firefox"))[] 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 469--469
 []         \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No
", "Cancel"))),[] 
[1968] [1969] [1970]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 691--691
 []\T1/pcr/m/n/10 aspell_package_R_files(dir, ignore = character(), control = l
ist(),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 692--692
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 693--693
 []\T1/pcr/m/n/10 aspell_package_C_files(dir, ignore = character(), control = l
ist(),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 694--694
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
[1971]
Underfull \hbox (badness 10000) in paragraph at lines 728--734
[]\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 aspell_package_Rd_files[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 aspell_package_vignettes[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 4416) in paragraph at lines 728--734
[]\T1/pcr/m/n/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 a
spell_package_C_files []\T1/ptm/m/n/10 per-form spell check-
[1972] [1973]
Underfull \hbox (badness 1552) in paragraph at lines 927--933
[]\T1/ptm/m/n/10 A char-ac-ter ma-trix with one row per pack-age, row names the
 pack-age names and col-
[1974]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 954--954
 []\T1/pcr/m/n/9 db <- available.packages(repos = findCRANmirror("web"), filter
s = "duplicates")[] 
[1975]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 1056--1056
 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer =
 NULL, 
[1976]
Underfull \hbox (badness 7649) in paragraph at lines 1130--1136
[][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if Bib-TeX co
de should be given ad-di-tion-ally;
Underfull \hbox (badness 5533) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 cur-rently ap-plies only to []\T1/pcr/m/n/10 style = "citation"[
]\T1/ptm/m/n/10 . The de-fault for
Underfull \hbox (badness 4739) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 the []\T1/pcr/m/n/10 print() []\T1/ptm/m/n/10 method de-pends on
 the num-ber of (bib) en-tries and
Underfull \hbox (badness 1215) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 For ex-am-ple, to see no Bib-TeX at all, you can change the de-f
ault by
[1977]
Underfull \hbox (badness 10000) in paragraph at lines 1139--1141
[]\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing
[1978]
Underfull \hbox (badness 10000) in paragraph at lines 1257--1260
[]\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Digital _ Object _
[1979]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1340--1340
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1980] [1981] [1982] [1983] [1984] [1985]
Underfull \hbox (badness 1859) in paragraph at lines 1749--1758
[]\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b
e quite large the com-
Underfull \hbox (badness 2042) in paragraph at lines 1749--1758
\T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1
/ptm/m/n/10 never re-turns. Do not re-port that
[1986] [1987]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1854--1854
 []                                     \T1/pcr/m/n/9 data = infert, family = b
inomial())))[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 1889--1889
 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b
efore$timestamp,[] 
[1988] [1989]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 2035--2035
 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp"
), md5sum=TRUE)[] 
[1990]
Underfull \hbox (badness 2277) in paragraph at lines 2104--2109
[]\T1/pcr/m/n/10 charClass []\T1/ptm/m/n/10 was added in \T1/phv/m/n/10 R \T1/p
tm/m/n/10 4.1.0. A less di-rect way to ex-am-ine char-ac-ter classes
[1991]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 2136--2136
 []\T1/pcr/m/n/9 cl <- c("alnum", "alpha", "blank", "digit", "graph", "punct", 
"upper", "xdigit")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2138--2138
 []\T1/pcr/m/n/9 X <- as.data.frame(X); row.names(X) <- sQuote(intToUtf8(x, mul
tiple = TRUE))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 2146--2146
 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in
 Unicode 13.)[] 
[1992] [1993]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2294--2294
 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1994]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2346--2346
 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1995]
Underfull \hbox (badness 1117) in paragraph at lines 2461--2468
[]\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/pcr/m/n/10 citation() []\T1/
ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print
Underfull \hbox (badness 1400) in paragraph at lines 2461--2468
\T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I
f a pack-age has more
[1996] [1997]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2544--2544
 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after =
 NULL,[] 
[1998]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2664--2664
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1999]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 2704--2704
 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N
ULL, ...) 
Underfull \hbox (badness 1082) in paragraph at lines 2733--2737
[][][]\T1/pcr/m/n/10 citation[][][] []\T1/ptm/m/n/10 for more in-for-ma-tion ab
out cit-ing R and R pack-ages and `\T1/pcr/m/n/10 CITATION\T1/ptm/m/n/10 ' file
s;
[2000]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cli
pboard}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.2738 ... the Clipboard in MS Windows}{clipboard}
                                                  
Underfull \hbox (badness 1163) in paragraph at lines 2769--2771
[]\T1/ptm/m/n/10 The Win-dows clip-board of-fers data in a num-ber of for-mats:
 see e.g. [][]$\T1/pcr/m/n/10 https : / / docs .
Overfull \vbox (1.12102pt too high) has occurred while \output is active
[2001] [2002]
Underfull \hbox (badness 10000) in paragraph at lines 2862--2864
[]\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/
phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see
[2003] [2004] [2005]
Underfull \hbox (badness 10000) in paragraph at lines 3083--3085
[]\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see
[2006] [2007] [2008] [2009]
Underfull \hbox (badness 1762) in paragraph at lines 3376--3379
[]\T1/ptm/m/n/10 To just look in the `\T1/pcr/m/n/10 data\T1/ptm/m/n/10 ' di-re
c-tory of the cur-rent work-ing di-rec-tory, set []\T1/pcr/m/n/10 package =
[2010]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3464--3464
 []\T1/pcr/m/n/9 try(data(package = "rpart"), silent = TRUE) # list the data se
ts in the rpart package[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3465--3465
 []\T1/pcr/m/n/9 data(USArrests, "VADeaths")    # load the data sets \TS1/pcr/m
/n/9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 
'\T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] 
[2011]
Underfull \hbox (badness 2452) in paragraph at lines 3539--3542
[]\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class []\
T1/pcr/m/n/10 R_dataentry[]\T1/ptm/m/n/10 . Re-sources
[2012] [2013] [2014] [2015] [2016] [2017] [2018]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 3967--3967
 []  \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf
orm$r_arch, "stats.dll"))[] 
[2019]
Underfull \hbox (badness 4779) in paragraph at lines 4048--4053
[]\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10
 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use
[2020]
Underfull \hbox (badness 1072) in paragraph at lines 4111--4115
[]\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by
 the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the
Underfull \hbox (badness 7238) in paragraph at lines 4167--4172
[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1
0 via \T1/ptm/m/n/10 the en-vi-ron-
Underfull \hbox (badness 1337) in paragraph at lines 4167--4172
\T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or 
[]\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / 
/ curl . se / libcurl / c /
Underfull \hbox (badness 1184) in paragraph at lines 4182--4198
\T1/ptm/m/n/10 string con-tain-ing `[]\T1/pcr/m/n/10 "Schannel"[]\T1/ptm/m/n/10
 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-
[2021] [2022]
Underfull \hbox (badness 4660) in paragraph at lines 4308--4311
\T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/
m/n/10 which makes an in-ter-nal call to
Underfull \hbox (badness 10000) in paragraph at lines 4332--4334
[]\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 do
wnload.file[][][] []\T1/ptm/m/n/10 and
[2023] [2024] [2025]
Underfull \hbox (badness 1565) in paragraph at lines 4519--4523
[]\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c
har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of
[2026]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4602--4602
 []        \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F
ALSE,[] 
[2027]
Underfull \hbox (badness 1910) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 is saved, then ini-tial-ized to a spec-i-fied state, the ex-am-p
le is run and
Underfull \hbox (badness 1655) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 the (saved) state is re-stored. []\T1/pcr/m/n/10 setRNG = TRUE [
]\T1/ptm/m/n/10 sets the same state as
Underfull \hbox (badness 2846) in paragraph at lines 4637--4644
[]\T1/pcr/m/n/10 R CMD [][]check[][][] []\T1/ptm/m/n/10 does for run-ning a pac
k-age's ex-am-ples. This is cur-
Underfull \hbox (badness 3460) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 rently equiv-a-lent to []\T1/pcr/m/n/10 setRNG = {RNGkind("defau
lt", "default",
Underfull \hbox (badness 1931) in paragraph at lines 4644--4651
[]\T1/ptm/m/n/10 logical (or []\T1/pcr/m/n/10 "default"[]\T1/ptm/m/n/10 ) in-di
-cat-ing if [][][]\T1/pcr/m/n/10 devAskNewPage[][][](ask = TRUE)
[2028] [2029] [2030] [2031]
Underfull \hbox (badness 5939) in paragraph at lines 4897--4899
[]\T1/ptm/m/n/10 An en-try in []\T1/pcr/m/n/10 getOption("repos") []\T1/ptm/m/n
/10 named `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' which is not the de-fault
[2032] [2033]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5040--5040
 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o
ne is in the[] 
[2034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for
mat}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5111 ...mat Unordered and Ordered Lists}{format}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.format.1}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.5111 ...mat Unordered and Ordered Lists}{format}
                                                   [2035] [2036] [2037]
[2038] [2039] [2040] [2041] [2042]
Underfull \hbox (badness 1622) in paragraph at lines 5634--5638
[]\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing
 to ex-ter-nal GUIs or to the
[2043] [2044] [2045] [2046] [2047] [2048]
Underfull \hbox (badness 1448) in paragraph at lines 6019--6024
[]\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject
s, cor-re-spond-ing to call-ing
[2049] [2050]
Overfull \hbox (96.78088pt too wide) in paragraph at lines 6166--6166
 []\T1/pcr/m/n/10 ## NB: The methods for \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 data.f
rame\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 and \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 array\
TS1/pcr/m/n/10 '  \T1/pcr/m/n/10 are identical to the \TS1/pcr/m/n/10 '\T1/pcr/
m/n/10 matrix\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 one[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 6178--6178
 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported 
as tail.matrix()[] 
[2051] [2052]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6312--6312
 []    \T1/pcr/m/n/9 ## BUT if I use "useAttrib(.)", this is *not* ok, when n i
s of length 2:[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 6313--6313
 []    \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops 
"other" attributes ..[] 
[2053] [2054] [2055]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6523--6523
 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h
elp(dgamma):[] 
[2056]
Underfull \hbox (badness 10000) in paragraph at lines 6607--6609
[]\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 https : / / www . r-[]
project . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also
[2057]
Underfull \hbox (badness 1502) in paragraph at lines 6656--6662
[]\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words
'. `Key-
Underfull \hbox (badness 2103) in paragraph at lines 6656--6662
\T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are 
listed in file
[2058] [2059]
Underfull \hbox (badness 10000) in paragraph at lines 6833--6842
[]\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-
Underfull \hbox (badness 10000) in paragraph at lines 6833--6842
\T1/ptm/m/n/10 dex, `\T1/ptm/m/sl/10 R_DOC_DIR\T1/pcr/m/n/10 /html/packages.htm
l\T1/ptm/m/n/10 ', which can be re-made by
[2060]
Underfull \hbox (badness 2150) in paragraph at lines 6895--6898
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion 
to search. See
Underfull \hbox (badness 5175) in paragraph at lines 6911--6914
[]\T1/pcr/m/n/10 hsearch_db() []\T1/ptm/m/n/10 builds and caches the help searc
h database for sub-se-quent use by
[2061] [2062]
Underfull \hbox (badness 3118) in paragraph at lines 7034--7036
[]\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion `
Lock-ing' in the help for
[2063] [2064]
Underfull \hbox (badness 5091) in paragraph at lines 7209--7211
[]\T1/ptm/m/n/10 download method, see [][][]\T1/pcr/m/n/10 download.file[][][][
]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL
[2065]
Underfull \hbox (badness 10000) in paragraph at lines 7239--7246
[]\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 means to use []\T1/pcr/m/n/10 c("Depends
", "Imports", "LinkingTo",
Underfull \hbox (badness 10000) in paragraph at lines 7239--7246
\T1/pcr/m/n/10 "Suggests") []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pkgs []\T1/ptm
/m/n/10 and []\T1/pcr/m/n/10 c("Depends", "Imports",
Underfull \hbox (badness 1270) in paragraph at lines 7239--7246
\T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in
-stalls all the pack-ages
Underfull \hbox (badness 1270) in paragraph at lines 7254--7264
\T1/ptm/m/n/10 for the `[]\T1/pcr/m/n/10 --configure-args[]\T1/ptm/m/n/10 ' fla
g in the call to []\T1/pcr/m/n/10 R CMD INSTALL[]\T1/ptm/m/n/10 . If
[2066]
Underfull \hbox (badness 4441) in paragraph at lines 7297--7300
[]\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to
 be passed to
Underfull \hbox (badness 2837) in paragraph at lines 7297--7300
[]\T1/pcr/m/n/10 R CMD INSTALL []\T1/ptm/m/n/10 for a source pack-age in-stall.
 E.g., []\T1/pcr/m/n/10 c("--html",
Underfull \hbox (badness 1424) in paragraph at lines 7305--7308
[]\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p
tm/m/it/10 not \T1/ptm/m/n/10 passed to
Underfull \hbox (badness 10000) in paragraph at lines 7318--7322
[]\T1/ptm/m/n/10 further ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 downl
oad.file[][][][]\T1/ptm/m/n/10 ,
[2067]
Underfull \hbox (badness 2376) in paragraph at lines 7377--7384
[]\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/pcr/m/n
/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail-
Underfull \hbox (badness 5175) in paragraph at lines 7377--7384
\T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there
 are source pack-ages
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\T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com
-piled is con-trolled by
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[]\T1/ptm/m/n/10 Using pack-ages with []\T1/pcr/m/n/10 type = "source" []\T1/pt
m/m/n/10 al-ways works pro-vided the pack-age con-tains no
[2068]
Underfull \hbox (badness 1314) in paragraph at lines 7464--7471
[]\T1/pcr/m/n/10 install.packages []\T1/ptm/m/n/10 needs to be able to com-pute
 all the de-pen-den-cies of []\T1/pcr/m/n/10 pkgs []\T1/ptm/m/n/10 from
[2069]
Underfull \hbox (badness 10000) in paragraph at lines 7547--7552
[][][]\T1/pcr/m/n/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pac
kages[][][][]\T1/ptm/m/n/10 ,
Overfull \hbox (25.98041pt too wide) in paragraph at lines 7570--7570
 []  \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc
lude/udunits2"))[] 
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each
 pack-age's
Underfull \hbox (badness 1983) in paragraph at lines 7620--7623
[]\T1/pcr/m/n/10 installed.packages []\T1/ptm/m/n/10 scans the `\T1/pcr/m/n/10 
DESCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along
[2070]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7667--7667
 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields
 = "License")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7672--7672
 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot
hers separate![] 
[2071] [2072]
Underfull \hbox (badness 4132) in paragraph at lines 7798--7800
[]\T1/ptm/m/n/10 The ac-tual link-ing com-mand is con-structed by the ver-sion 
of []\T1/pcr/m/n/10 libtool []\T1/ptm/m/n/10 in-stalled at
[2073] [2074] [2075]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7965--7965
 []\T1/pcr/m/n/9 ls.str(mode = "list")   #- what are the structured objects I h
ave defined?[] 
[2076] [2077]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 8108--8108
 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F
ALSE) 
[2078]
Underfull \hbox (badness 10000) in paragraph at lines 8148--8150
[]\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/
phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see
[2079]
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 []   \T1/pcr/m/n/10 methods(generic.function, class, all.names = FALSE, dropPa
th = FALSE)[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8242--8242
 []                                    \T1/pcr/m/n/10 all.names = FALSE, dropPa
th = FALSE)[] 
Underfull \hbox (badness 10000) in paragraph at lines 8255--8257
[]\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if
Underfull \hbox (badness 10000) in paragraph at lines 8270--8272
[]\T1/ptm/m/n/10 typically the re-sult of []\T1/pcr/m/n/10 methods(..)[]\T1/ptm
/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class
[2080] [2081] [2082] [2083]
Underfull \hbox (badness 1859) in paragraph at lines 8502--8505
[]\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br
owser (by
[2084] [2085]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 8630--8630
 []\T1/pcr/m/n/9 db4 <- news(Version == "4.0.0" & grepl("^BUG", Category) & gre
pl("PR#", Text),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 8636--8636
 []\T1/pcr/m/n/9 ## News from a date range (\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Matri
x\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is there in a regular R installation):[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 8644--8644
 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st
andardize a bit more[] 
[2086]
Underfull \hbox (badness 1917) in paragraph at lines 8731--8733
[]\T1/pcr/m/n/10 "B"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "KiB"[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 "MiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "GiB"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "TiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "PiB"[]\T1/ptm/m/
n/10 ,
Underfull \hbox (badness 1331) in paragraph at lines 8739--8743
[]\T1/ptm/m/n/10 For all stan-dards, []\T1/pcr/m/n/10 units = "auto" []\T1/ptm/
m/n/10 is also al-lowed. If []\T1/pcr/m/n/10 standard =
[2087] [2088] [2089]
Underfull \hbox (badness 7099) in paragraph at lines 8903--8908
[]\T1/ptm/m/n/10 optionally a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/
n/10 string with an en-cod-ing for an op-tional
[2090]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 9005--9005
 []            \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica
tion", "Built"),[] 
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 []            \T1/pcr/m/n/10 tryFormats = c("%Y-%m-%d", "%Y/%m/%d", "%D", "%m/
%d/%y"),[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 9007--9007
 []            \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f
ields=date.fields))[] 
[2091]
Underfull \hbox (badness 10000) in paragraph at lines 9035--9037
[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 asDateBuilt()[]\T1/ptm/m/n/10 , a [][][]\
T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string as from
Underfull \hbox (badness 10000) in paragraph at lines 9049--9051
[]\T1/pcr/m/n/10 packageVersion() []\T1/ptm/m/n/10 is a con-ve-nience short-cut
, al-low-ing things like []\T1/pcr/m/n/10 if
Underfull \hbox (badness 1259) in paragraph at lines 9057--9062
[]\T1/ptm/m/n/10 If a `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the 
given pack-age is found and can suc-cess-fully be read,
[2092]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 9101--9101
 []          \T1/pcr/m/n/9 identical(pu, packageDate("stats"))) # as "utils" an
d "stats" are[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 9102--9102
 []                                   \T1/pcr/m/n/9 # both \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 base R\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and "Built" at same time[] 
[2093] [2094]
Underfull \hbox (badness 10000) in paragraph at lines 9228--9233
[]\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit
h lev-els []\T1/pcr/m/n/10 c("ok", "upgrade",
Underfull \hbox (badness 10000) in paragraph at lines 9235--9238
[]\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit
h lev-els []\T1/pcr/m/n/10 c("installed", "not
[2095] [2096]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 9352--9352
 []       \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme
nt"),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 9353--9353
 []       \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", 
">"),[] 
[2097] [2098]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9538--9538
 []         \T1/pcr/m/n/9 "S original, <http://statwww.epfl.ch/davison/BMA/libr
ary.html>"),[] 
[2099] [2100] [2101]
Underfull \hbox (badness 1789) in paragraph at lines 9706--9708
[]\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for
 more dis-cus-sion of the
[2102] [2103] [2104]
Underfull \hbox (badness 2600) in paragraph at lines 9930--9933
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic;
 de-faults to
[2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 10553--10553
 []         \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "
no.loss"),[] 
[2113] [2114] [2115]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 10714--10714
 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr
anspose = TRUE)[] 
[2116] [2117]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 10895--10895
 []\T1/pcr/m/n/9 read.fwf(ff, widths = list(c(1,0, 2,3), c(2,2,2))) #> 1 NA 23 
456 98 76 54[] 
[2118] [2119]
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 []           \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss",
 "no.loss"),[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 10982--10982
 []           \T1/pcr/m/n/10 row.names, col.names, as.is = !stringsAsFactors, t
ryLogical = TRUE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 10984--10984
 []           \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines.
skip,[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 10989--10989
 []           \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski
pNul = FALSE)[] 
[2120]
Underfull \hbox (badness 2027) in paragraph at lines 11061--11064
[]\T1/ptm/m/n/10 Using []\T1/pcr/m/n/10 row.names = NULL []\T1/ptm/m/n/10 force
s row num-ber-ing. Miss-ing or []\T1/pcr/m/n/10 NULL
Underfull \hbox (badness 2435) in paragraph at lines 11084--11088
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 de-ter-m
in-ing if columns con-sist-ing en-tirely of []\T1/pcr/m/n/10 "F"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1824) in paragraph at lines 11084--11088
[]\T1/pcr/m/n/10 "FALSE"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "TRUE" []\T1/pt
m/m/n/10 should be con-verted to [][][]\T1/pcr/m/n/10 logical[][][][]\T1/ptm/m/
n/10 ; passed to
[2121] [2122] [2123] [2124]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 11346--11346
 []\T1/pcr/m/n/10 readRegistry(key, hive = c("HLM", "HCR", "HCU", "HU", "HCC", 
"HPD"), 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 11347--11347
 []             \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64-
bit"))[] 
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
[]\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/
pcr/m/n/10 HKEY_CLASSES_ROOT[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
[]\T1/pcr/m/n/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_USER
S[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_CURRENT_CONFIG
[2125] [2126] [2127]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 11586--11586
 []        \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c
(1, 0))) 
[2128] [2129] [2130] [2131] [2132]
Underfull \hbox (badness 2469) in paragraph at lines 11852--11856
[]\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2024). Ro-man nu-mer-als. Wikipedia
, The Free En-cy-clo-pe-dia.
Underfull \hbox (badness 10000) in paragraph at lines 11852--11856
[][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / w / index . php ? title 
= Roman _ numerals & oldid =
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11870--11870
 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:6))) # + NA with a warni
ng for "IIIIII"[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11875--11875
 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in  
{1,2,..,3999} :[] 
[2133] [2134]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 12028--12028
 []\T1/pcr/m/n/10 4. |     \-base:::tryCatchOne(expr, names, parentenv, handler
s[[1L]])[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 12029--12029
 []\T1/pcr/m/n/10 5. |       \-base:::doTryCatch(return(expr), name, parentenv,
 handler)[] 
[2135]
Underfull \hbox (badness 10000) in paragraph at lines 12131--12133
[]\T1/ptm/m/n/10 The chap-ter on ``Tidy-ing and pro-fil-ing R code'' in `Writ-i
ng R Ex-ten-sions':
[2136]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12164--12164
 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold
 = 0) 
[2137] [2138]
Underfull \hbox (badness 1917) in paragraph at lines 12297--12300
[]\T1/ptm/m/n/10 If `[]\T1/pcr/m/n/10 --default-packages[]\T1/ptm/m/n/10 ' is n
ot used, then []\T1/pcr/m/n/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron-me
nt vari-
Underfull \hbox (badness 4328) in paragraph at lines 12297--12300
\T1/ptm/m/n/10 able []\T1/pcr/m/n/10 R_SCRIPT_DEFAULT_PACKAGES[]\T1/ptm/m/n/10 
. If this is set, then it takes prece-dence over
Overfull \hbox (106.98032pt too wide) in paragraph at lines 12320--12320
 []\T1/pcr/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr
aphics,stats -e \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 sessionInfo()\TS1/pcr/m/n/9 '[] 
[2139] [2140]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 12412--12412
 []            \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news",
 "Rfunctions",[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 12413--12413
 []                         \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig
nettes"),[] 
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 []            \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s
ubject",[] 
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 []                       \T1/pcr/m/n/10 "subject:descending", "size", "size:de
scending"),[] 
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\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 score[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 date:
late []\T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first,
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\T1/ptm/m/n/10 der, []\T1/pcr/m/n/10 subject:descending []\T1/ptm/m/n/10 for re
-verse al-pha-bet-i-cal or-der, []\T1/pcr/m/n/10 size []\T1/ptm/m/n/10 or
[2141]
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 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes","
Rfunctions"))[] 
[2142]
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[]\T1/ptm/m/n/10 Character string spec-i-fy-ing whether emacs style ([]\T1/pcr/
m/n/10 "etags"[]\T1/ptm/m/n/10 ) or vi style
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[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p
tm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / www . gnu . org / software /
[2143]
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 []             \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F
ALSE, ...)[] 
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[]\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 stylepath []\T1/ptm/m/n/10 i
s now taken from the en-vi-ron-ment vari-able
[2146]
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[]\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y
ou can add a
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[]\T1/ptm/m/n/10 The use of fancy quotes (see [][][]\T1/pcr/m/n/10 sQuote[][][]
[]\T1/ptm/m/n/10 ) can cause prob-lems when set-ting \T1/phv/m/n/10 R \T1/ptm/m
/n/10 out-put in
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rent")[] 
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tions can be ex-e-cuted. If
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[]\T1/ptm/m/n/10 The file `\T1/pcr/m/n/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ures
 the R GUI ([]\T1/pcr/m/n/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows
 and
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[]\T1/ptm/m/n/10 At the time of writ-ing `\T1/pcr/m/n/10 Rdevga\T1/ptm/m/n/10 '
 con-fig-ured the map-ping of font num-bers to fonts, and
[2150] [2151] [2152] [2153] [2154]
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[]\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in
g
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[]\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in
g
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end of report[] 
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[]\T1/ptm/m/n/10 Repository `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' is treated
 spe-cially: the value is taken from the cur-rent set-ting of
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fix)) 
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[]\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t
o the Win-dows API call
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[]\T1/pcr/m/n/10 getSrcFilename []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 getSrcDir
ectory []\T1/ptm/m/n/10 re-turn char-ac-ter vec-tors hold-ing the file-
[2161] [2162] [2163]
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 TRUE, ...))[] 
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[]\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t
ive
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[][][]\T1/pcr/m/n/10 options[][][]("width")[]\T1/ptm/m/n/10 ; note that this ha
s only a weak ef-fect, un-less
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[]\T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 options[][][][]\T1/ptm/m/n/10 ) whic
h de-faults to []\T1/pcr/m/n/10 "no" []\T1/ptm/m/n/10 for back com-pat-i-bil-it
y rea-sons;
[2164]
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[]\T1/ptm/m/n/10 numeric or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 as by de-fau
lt, de-ter-min-ing the []\T1/pcr/m/n/10 nlines []\T1/ptm/m/n/10 ar-gu-ment to
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 []\T1/pcr/m/n/9 str(.Machine, digits.d = 20) # extra digits for identification
 of binary numbers[] 
[2165]
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 []\T1/pcr/m/n/9 ## Truncation behavior (<-> correct width measurement) for "lo
ng" non-ASCII:[] 
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e  1  (in UTF-8!):[] 
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[]\T1/ptm/m/n/10 Options other than []\T1/pcr/m/n/10 memory = "none" []\T1/ptm/
m/n/10 ap-ply only to files pro-duced by
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[]\T1/ptm/m/n/10 The chap-ter on `Tidy-ing and pro-fil-ing R code' in `Writ-ing
 R Ex-ten-sions':
[2169]
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[]\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's setup func-tion. Se
e
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[][][]\T1/pcr/m/n/10 RweaveLatexSetup[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/
m/n/10 RtangleSetup[][][][]\T1/ptm/m/n/10 , re-spec-tively, for the ar-gu-
[2170]
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[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fau
lt) then the avail-able syn-tax ob-jects are con-sulted in
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\T1/ptm/m/n/10 turn, and se-lected if their []\T1/pcr/m/n/10 extension []\T1/pt
m/m/n/10 com-po-nent matches (as a reg-exp) the file
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\T1/ptm/m/n/10 name. Ob-jects []\T1/pcr/m/n/10 SweaveSyntaxNoweb []\T1/ptm/m/n/
10 (with []\T1/pcr/m/n/10 extension = "[.][rsRS]nw$"[]\T1/ptm/m/n/10 ) and
[2171] [2172]
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\T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/
n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on
 some plat-forms),
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\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --
exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n
/10 ' (and sim-i-lar) and on Win-dows
[2173]
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[]\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p
cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able
[2174]
Underfull \hbox (badness 5022) in paragraph at lines 14794--14798
[]\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t
o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment 
vari-able
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[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ f
ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / pubs .
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\T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht
ml # tag _ 20 _ 92 _
[2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183]
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 []             \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc,
 ...),[] 
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 []             \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc,
 ...),[] 
[2184]
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[]\T1/ptm/m/n/10 Download method, see [][][]\T1/pcr/m/n/10 download.file[][][][
]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL
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\T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/
m/n/10 which makes an in-ter-nal call to
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[]\T1/ptm/m/n/10 by de-fault all in-stalled pack-ages, [][][]\T1/pcr/m/n/10 ins
talled.packages[][][](lib.loc =
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[]\T1/ptm/m/n/10 Arguments such as []\T1/pcr/m/n/10 destdir []\T1/ptm/m/n/10 an
d []\T1/pcr/m/n/10 dependencies []\T1/ptm/m/n/10 to be
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\T1/ptm/m/n/10 passed to [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/
m/n/10 and []\T1/pcr/m/n/10 ignore_repo_cache[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 max_repo_cache_age []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 noCac
he []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 available.packages[][][]
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[]\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and
 in-stall. See
[2185]
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[]\T1/pcr/m/n/10 available = NULL []\T1/ptm/m/n/10 make a call to []\T1/pcr/m/n
/10 available.packages(contriburl =
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\T1/pcr/m/n/10 contriburl, method = method) []\T1/ptm/m/n/10 and hence by de-fa
ult fil-ters on \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion, OS type
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[]\T1/ptm/m/n/10 Take care when us-ing []\T1/pcr/m/n/10 dependencies []\T1/ptm/
m/n/10 (passed to [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 )
 with
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[][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pa
ckages[][][][]\T1/ptm/m/n/10 ,
[2186]
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 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/
csb/ch3a.txt") 
[2187] [2188] [2189]
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[][][]\T1/pcr/m/n/10 browseVignettes[][][] []\T1/ptm/m/n/10 for an HTML-based v
i-gnette browser; [][][]\T1/pcr/m/n/10 RShowDoc[][][]("\T1/ptm/m/sl/10 basename
\T1/pcr/m/n/10 ",
[2190]
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 []\T1/pcr/m/n/9 ## Note that \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 package = *\TS1/pcr
/m/n/9 ' \T1/pcr/m/n/9 is much faster in the case of many installed packages:[]
 
[2191]
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ata = DAT)))[] 
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 []                 \T1/pcr/m/n/9 nls(weight ~ SSlogis(Time, Asym, xmid, scal),
 data = DD)))[] 
[2192] [2193]
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[]\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i
s se-lected, or
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 winMenuDel []\T1/ptm/m/n/10 func-tion wil
l delete a menu and all of its items and sub-menus.
[2195] [2196]
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[]\T1/ptm/m/n/10 arguments to []\T1/pcr/m/n/10 write.table[]\T1/ptm/m/n/10 : []
\T1/pcr/m/n/10 append[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 col.names[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 sep[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dec []\T1/ptm/m/n
/10 and
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[]\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec-
tion e.g. []\T1/pcr/m/n/10 file =
[2198] [2199] [2200]) [2201] [2202] (./KernSmooth-pkg.tex
Chapter 15.
[2203]
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 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat
e = TRUE) 
[2204] [2205] [2206] [2207] [2208]
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 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun
 = 0.05, 
[2209] [2210] [2211] [2212]) (./MASS-pkg.tex
Chapter 16.
[2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] [2222] [2223]
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 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b
eav2$hours/24))[] 
[2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233]pdfTeX war
ning (ext4): destination with the same identifier (name{Rfn.confint.glm}) has b
een already used, duplicate ignored
<to be read again> 
                   \relax 
l.1479 ...{confint.glm}{confint-MASS}{confint.glm}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.confint.nls}) has been already used, d
uplicate ignored
<to be read again> 
                   \relax 
l.1480 ...{confint.nls}{confint-MASS}{confint.nls}
                                                   [2234] [2235] [2236]
[2237] [2238] [2239] [2240] [2241] [2242] [2243] [2244] [2245]
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"F"),[] 
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"F"),[] 
[2246] [2247] [2248] [2249]
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[]\T1/ptm/m/n/10 further ar-gu-ments for []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10
 and graph-i-cal pa-ram-e-ters. Note that
[2250] [2251] [2252]
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[]\T1/pcr/m/n/10 "gamma"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "geometric"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "log-normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lo
gnormal"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "negative binomi
al"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n
/10 "Poisson"[]\T1/ptm/m/n/10 ,
[2253] [2254]
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[]\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i-
na-tor ex-ceeds
[2255] [2256] [2257]
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 []            \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL
SE, ...)[] 
[2258] [2259]
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 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist =
 "exponential")[] 
[2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270]
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[]\T1/ptm/m/n/10 The va-ri-ety of bar-ley ([]\T1/pcr/m/n/10 "manchuria"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "svansota"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "velv
et"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trebi" []\T1/ptm/m/n/10 and
[2271] [2272] [2273] [2274] [2275] [2276] [2277]
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 []        \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n",
 ...)[] 
[2278] [2279] [2280]
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 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model 
= FALSE, 
[2281] [2282] [2283] [2284] [2285] [2286] [2287] [2288] [2289] [2290] [2291]
[2292] [2293] [2294]
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 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP
ACK = FALSE) 
[2295]
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 []\T1/pcr/m/n/10 negative.binomial(theta = stop("\TS1/pcr/m/n/10 '\T1/pcr/m/n/
10 theta\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 must be specified"), link = "log") 
[2296] [2297]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.npk}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6086 ...sical N, P, K Factorial Experiment}{npk}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.npk.1}) has been already used, duplica
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l.6086 ...sical N, P, K Factorial Experiment}{npk}
                                                   [2298] [2299] [2300]
[2301] [2302] [2303]
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 []     \T1/pcr/m/n/9 start = list(fixed=c(L75=c(48.7, -0.03), lsc=0.24)), verb
ose = TRUE)))[] 
[2304]
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 []     \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr
ellis"))[] 
[2305] [2306] [2307] [2308] [2309]
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 []     \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c
auchit"))[] 
[2310]
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[]\T1/ptm/m/n/10 The log-log and com-ple-men-tary log-log links are the in-crea
s-ing func-tions $\OML/cmm/m/it/10 F[]\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 p\OT1/c
mr/m/n/10 ) =
[2311]
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 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da
ta = housing)[] 
[2312] [2313]
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[]\T1/ptm/m/n/10 the di-men-sion of the space to be used. If this is less than 
[]\T1/pcr/m/n/10 min(p,
[2314] [2315]
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 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam
p = "exact")[] 
[2316]
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 []        \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC
V"), ...)[] 
[2317]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.pro
file.glm}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7514 ... for Profiling glm Objects}{profile.glm}
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                   \relax 
l.7514 ... for Profiling glm Objects}{profile.glm}
                                                   [2318] [2319] [2320]
[2321]
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[]\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i-
na-tor ex-ceeds
[2322] [2323]
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 []    \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control =
 NULL)[] 
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[]\T1/ptm/m/n/10 A func-tion to spec-ify the ac-tion to be taken if []\T1/pcr/m
/n/10 NA[]\T1/ptm/m/n/10 s are found. The
[2324] [2325] [2326] [2327] [2328] [2329] [2330] [2331] [2332] [2333] [2334]
[2335] [2336] [2337] [2338] [2339] [2340] [2341] [2342] [2343]
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 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS
E, ...)[] 
[2344]
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[]\T1/ptm/m/n/10 ``Fold your arms! Which is on top'' (Fac-tor, with lev-els []\
T1/pcr/m/n/10 "R on L"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "L on R"[]\T1/ptm/m/n
/10 ,
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[]\T1/ptm/m/n/10 how much the stu-dent smokes. (Fac-tor, lev-els []\T1/pcr/m/n/
10 "Heavy"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Regul" []\T1/ptm/m/n/10 (reg-u-l
arly),
[2345]
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 []\T1/pcr/m/n/10 theta.md(y, mu, dfr, weights, limit = 20, eps = .Machine$doub
le.eps^0.25) 
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 []\T1/pcr/m/n/10 theta.ml(y, mu, n, weights, limit = 10, eps = .Machine$double
.eps^0.25,[] 
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 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub
le.eps^0.25)[] 
[2346] [2347] [2348] [2349] [2350]
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[]\T1/ptm/m/n/10 The orig-i-nal data are avail-able at [][]$\T1/pcr/m/n/10 http
s : / / lib . stat . cmu . edu / datasets / 1993 .
[2351] [2352] [2353] [2354] [2355] [2356] [2357] [2358]) (./Matrix-pkg.tex
Chapter 17.
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[]\T1/ptm/m/n/10 Note that the cur-rent im-ple-men-ta-tion de-tails are sub-jec
t to change, and if you
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\T1/ptm/m/n/10 con-sider work-ing with these classes, please con-tact the pack-
age main-tain-ers
[2359]
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[]\T1/ptm/m/n/10 This is cur-rently ex-per-i-men-tal and not yet used for our o
wn code. Please con-tact us
[2360]
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[]\T1/ptm/m/n/10 in gen-eral an ar-bi-trary num-ber of \T1/phv/m/n/10 R \T1/ptm
/m/n/10 ob-jects; here, when the first is
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\T1/ptm/m/n/10 an []\T1/pcr/m/n/10 "[][]abIndex[][][]" []\T1/ptm/m/n/10 vec-tor
, these ar-gu-ments will be con-cate-nated to a new
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.all.equal
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.182 ...{all.equal}{all.equal-methods}{all.equal}
                                                  
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[]\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing
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[]\T1/ptm/m/n/10 There are more meth-ods, no-tably also for []\T1/pcr/m/n/10 "[
][]sparseVector[][][]"[]\T1/ptm/m/n/10 's, see
[2361]
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[]\T1/ptm/m/n/10 optional ar-gu-ments passed to the de-fault method for generic
 func-tion
[2362] [2363]
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 []   \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym
metry property[] 
[2364]
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[]\T1/ptm/m/n/10 logical; if true the re-sult will be sym-met-ric (in-her-it-in
g from class
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[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/
m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc
r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse
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 []\T1/pcr/m/n/9 s1 <- bandSparse(13, k = -c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
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 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k =  c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
[2365]
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 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20, 1), rpois(20, 3))[
c(1:3, 2:3, 3:2)],[] 
[2366]
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Fast version of Matrix :: .bd
iag() -- for the case of *many*  (k x k) matrices:[] 
[2367]
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @param lmat list(<mat1>, <mat
2>, ....., <mat_N>)  where each mat_j is a  k x k \TS1/pcr/m/n/9 '\T1/pcr/m/n/9
 matrix\TS1/pcr/m/n/9 '[] 
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @return a sparse (N*k x N*k) 
matrix of class  \code{"\linkS4class{dgCMatrix}"}.[] 
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 []        \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 i :\TS1/pcr/m/n/9 ' \
T1/pcr/m/n/9 maybe there\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s a faster way (w/o matri
x indexing), but elegant?[] 
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 []        \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len(
N), each=k)]),[] 
[2368]
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 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero
s" to drop0()[] 
[2369]
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[]\T1/pcr/m/n/10 new("pBunchKaufman", ...)[]\T1/ptm/m/n/10 , but they are more 
typ-i-cally ob-tained as the value of
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[]\T1/pcr/m/n/10 signature(from = "BunchKaufman", to = "dtrMatrix")[]\T1/ptm/m/
n/10 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "pBunchKaufman", to = "dtpMatrix")[]\T1/ptm/m
/n/10 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "p?BunchKaufman", logarithm =
[2370]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
[2371]
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[]\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing
 from vir-tual class
[2372]
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 []\T1/pcr/m/n/9 stopifnot(all.equal(as(A, "matrix"), as(Reduce(\TS1/cmtt/m/n/9
 `\T1/pcr/m/n/9 %*%\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 , e.bk.A), "matrix")))[] 
[2373]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbi
nd2.Rdash.methods}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1185 ... on cbind2/rbind2}{cbind2.Rdash.methods}
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ate ignored
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                   \relax 
l.1186 \aliasA{cbind2}{cbind2-methods}{cbind2}
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                   \relax 
l.1195 \aliasA{rbind2}{cbind2-methods}{rbind2}
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                   \relax 
l.1204 ...s}{cbind2-methods}{rbind2.Rdash.methods}
                                                   [2374]
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[]\T1/ptm/m/n/10 Our class def-i-ni-tion help pages men-tion-ing []\T1/pcr/m/n/
10 cbind2() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 rbind2() []\T1/ptm/m/n/10 met
h-ods:
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[]\T1/ptm/m/n/10 The im-ple-men-ta-tion of class []\T1/pcr/m/n/10 CHMfactor []\
T1/ptm/m/n/10 is based on CHOLMOD's C-level
[2375] [2376]
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[]\T1/pcr/m/n/10 signature(from = "CHMfactor", logarithm = "logical")[]\T1/ptm/
m/n/10 : be-
[2377]
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[]\T1/pcr/m/n/10 signature(update = ., C = ., object = "CHMfactor")[]\T1/ptm/m/
n/10 : see
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
[2378]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
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 []    \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(e.ch.A, L1 %*%
 D %*% L1.))[] 
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 []    \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(E.ch.A, L  %*%
         L. ))[] 
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 []\T1/pcr/m/n/9 u2 <- update(ch.A, t(M), mult = sqrt(2)) # updating with cross
prod(M), not M[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol}) ha
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<to be read again> 
                   \relax 
l.1625 \aliasA{chol}{chol-methods}{chol}
                                         [2379]
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
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                   \relax 
l.1854 ...sA{chol2inv}{chol2inv-methods}{chol2inv}
                                                   [2382] [2383]
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[]\T1/ptm/m/n/10 a nu-meric vec-tor of length []\T1/pcr/m/n/10 n*n []\T1/ptm/m/
n/10 ([]\T1/pcr/m/n/10 Cholesky[]\T1/ptm/m/n/10 ) or []\T1/pcr/m/n/10 n*(n+1)/2
 []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 pCholesky[]\T1/ptm/m/n/10 ), where
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[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 CholeskyFactorization[][][][]\T1/pt
m/m/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1
/ptm/m/n/10 , by class
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[]\T1/ptm/m/n/10 Objects can be gen-er-ated di-rectly by calls of the form []\T
1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or
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[]\T1/pcr/m/n/10 signature(from = "pCholesky", to = "dtpMatrix")[]\T1/ptm/m/n/1
0 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "p?Cholesky", logarithm = "logical")[]\T1/ptm
/m/n/10 :
[2384]
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
[2385]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
[2386]
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[]\T1/ptm/m/n/10 a [][]fi-nite[][][] num-ber. The ma-trix that is fac-tor-ized 
is []\T1/pcr/m/n/10 A + Imult *
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\T1/pcr/m/n/10 - diag(abs(A))) []\T1/ptm/m/n/10 en-sures that []\T1/pcr/m/n/10 
A + Imult * diag(nrow(A)) []\T1/ptm/m/n/10 is di-
[2387]
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[]\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing
 from vir-tual class
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
[2388] [2389]
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 []     \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm =  TRUE, super = FALSE, L
DL =  TRUE),[] 
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 []          \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm =  TRUE, super = FALSE, L
DL = FALSE),[] 
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 []          \T1/pcr/m/n/9 super0 = Cholesky(A4, perm =  TRUE, super =  TRUE   
          )),[] 
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 []     \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = FALSE, super = FALSE, L
DL =  TRUE),[] 
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 []          \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = FALSE, super = FALSE, L
DL = FALSE),[] 
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 []          \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = FALSE, super =  TRUE   
          )))[] 
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 []\T1/pcr/m/n/9 rapply2 <- function(object, f, ...) rapply(object, f, , , how 
= "list", ...)[] 
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 []          \T1/pcr/m/n/9 x = c(1, 6, 38, 10, 60, 103, -4, 6, -32, -247, -2, -
16, -128, -2, -67))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2391]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 2610--2610
 []  \T1/pcr/m/n/9 show(a1 <- sparseMatrix(i= c(1:4),   j=c(2:4,1),   x = 2,   
 dimnames=dns))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 2614--2614
 []  \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE,
 dimnames=dns))[] 
[2392]
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 []  \T1/pcr/m/n/9 a. <- sparseMatrix(i=4:1, j=1:4, dimnames=list(n4, n4), repr
="T") # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] 
[2393]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.col
Means}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.2696 ...asA{colMeans}{colSums-methods}{colMeans}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.colSums}) has been already used, dupli
cate ignored
<to be read again> 
                   \relax 
l.2704 \aliasA{colSums}{colSums-methods}{colSums}
                                                 pdfTeX warning (ext4): destina
tion with the same identifier (name{Rfn.rowMeans}) has been already used, dupli
cate ignored
<to be read again> 
                   \relax 
l.2711 ...asA{rowMeans}{colSums-methods}{rowMeans}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.rowSums}) has been already used, dupli
cate ignored
<to be read again> 
                   \relax 
l.2719 \aliasA{rowSums}{colSums-methods}{rowSums}
                                                 
Underfull \hbox (badness 2922) in paragraph at lines 2771--2775
[]\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sparse, i.e., i
n-her-it-ing from
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\T1/ptm/m/n/10 class [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/n/10 . 
Only ap-pli-ca-ble when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is in-her-it-ing fr
om a
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[][][]\T1/pcr/m/n/10 dimnames[][][](x) []\T1/ptm/m/n/10 are only kept (as [][][
]\T1/pcr/m/n/10 names[][][](v)[]\T1/ptm/m/n/10 ) when the re-sult-ing []\T1/pcr
/m/n/10 v []\T1/ptm/m/n/10 is [][][]\T1/pcr/m/n/10 numeric[][][][]\T1/ptm/m/n/1
0 , since
[2394] [2395]
Underfull \hbox (badness 3547) in paragraph at lines 2888--2891
[]\T1/ptm/m/n/10 a num-ber $\OML/cmm/m/it/10 > \OT1/cmr/m/n/10 0$\T1/ptm/m/n/10
 , the es-ti-mated (1-norm) con-di-tion num-ber $[]$; when
[2396] [2397] [2398] [2399] [2400]
Underfull \hbox (badness 10000) in paragraph at lines 3290--3293
[]\T1/pcr/m/n/10 signature(from = "denseLU", logarithm = "logical")[]\T1/ptm/m/
n/10 : com-
[2401]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3345--3345
 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3352--3352
 []              \T1/pcr/m/n/9 new(  "pMatrix", Dim = c(n, n), Dimnames = c(dn[
1L], list(NULL)),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3355--3355
 []              \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = list(
NULL, NULL),[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3358--3358
 []              \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = c(lis
t(NULL), dn[2L]),[] 
[2402]
Underfull \hbox (badness 7379) in paragraph at lines 3486--3488
[]\T1/pcr/m/n/10 signature(x = "dgCMatrix")[]\T1/ptm/m/n/10 : com-putes the LU 
de-com-po-si-tion of a square
[2403] [2404] [2405]
Underfull \hbox (badness 4846) in paragraph at lines 3707--3711
[]\T1/ptm/m/n/10 Note that both []\T1/pcr/m/n/10 new(.) []\T1/ptm/m/n/10 and []
[][]\T1/pcr/m/n/10 spMatrix[][][] []\T1/ptm/m/n/10 con-struc-tors for []\T1/pcr
/m/n/10 "dgTMatrix" []\T1/ptm/m/n/10 (and other
Underfull \hbox (badness 2717) in paragraph at lines 3712--3716
[]\T1/ptm/m/n/10 However this means that a ma-trix typ-i-cally can be stored in
 more than one pos-si-ble
[2406]
Underfull \hbox (badness 5231) in paragraph at lines 3757--3762
[]\T1/ptm/m/n/10 Construct a for-mally di-ag-o-nal [][][]\T1/pcr/m/n/10 Matrix[
][][][]\T1/ptm/m/n/10 , i.e., an ob-ject in-her-it-ing from vir-tual class
Overfull \hbox (84.78088pt too wide) in paragraph at lines 3768--3768
 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri 
= TRUE, kind, cols)[] 
[2407]
Underfull \hbox (badness 10000) in paragraph at lines 3824--3827
[]\T1/pcr/m/n/10 .trDiagonal() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 .symDiagon
al() []\T1/ptm/m/n/10 are sim-ple wrap-pers, for
Underfull \hbox (badness 6792) in paragraph at lines 3824--3827
[]\T1/pcr/m/n/10 .sparseDiagonal(shape = "t") []\T1/ptm/m/n/10 and []\T1/pcr/m/
n/10 .sparseDiagonal(shape = "s")[]\T1/ptm/m/n/10 , re-spec-
[2408]
Underfull \hbox (badness 3646) in paragraph at lines 3901--3904
[]\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 dimnames[][][][]\T1/ptm/m/n/10 , a []
[][]\T1/pcr/m/n/10 list[][][][]\T1/ptm/m/n/10 , see the [][][]\T1/pcr/m/n/10 Ma
trix[][][] []\T1/ptm/m/n/10 class de-scrip-tion. Typ-i-cally
Underfull \hbox (badness 6542) in paragraph at lines 3936--3940
[]\T1/pcr/m/n/10 signature(x = "diagonalMatrix")[]\T1/ptm/m/n/10 : all these gr
oup meth-ods re-turn a
Underfull \hbox (badness 4518) in paragraph at lines 3945--3951
[]\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 
: the re-sult is from class
[2409]
Underfull \hbox (badness 10000) in paragraph at lines 3952--3956
[]\T1/pcr/m/n/10 (object = "diagonalMatrix")[]\T1/ptm/m/n/10 : Re-turns an ob-j
ect of S3 class
Underfull \hbox (badness 2318) in paragraph at lines 3962--3966
[][][]\T1/pcr/m/n/10 Diagonal[][][]() []\T1/ptm/m/n/10 as con-struc-tor of thes
e ma-tri-ces, and [][][]\T1/pcr/m/n/10 isDiagonal[][][][]\T1/ptm/m/n/10 . [][][
]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 and
[2410] [2411] [2412]
Underfull \hbox (badness 10000) in paragraph at lines 4219--4221
[]\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 :
 this group con-tains
[2413] [2414]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 4360--4360
 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe
rent from the random one[] 
[2415]
Underfull \hbox (badness 2469) in paragraph at lines 4474--4477
[]\T1/pcr/m/n/10 signature(x = "dpoMatrix")[]\T1/ptm/m/n/10 : Re-turns the [][]
[]\T1/pcr/m/n/10 determinant[][][] []\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 x[]\T1/
ptm/m/n/10 , via
[2416]
Underfull \hbox (badness 10000) in paragraph at lines 4497--4502
[]\T1/ptm/m/n/10 Currently the va-lid-ity meth-ods for these classes such as
Underfull \hbox (badness 2020) in paragraph at lines 4497--4502
[][][]\T1/pcr/m/n/10 getValidity[][][](getClass("dpoMatrix")) []\T1/ptm/m/n/10 
for ef-fi-ciency rea-sons only check the di-
Underfull \hbox (badness 1748) in paragraph at lines 4503--4512
\T1/pcr/m/n/10 error=identity), "error") []\T1/ptm/m/n/10 . In-deed, when \T1/p
tm/m/it/10 co-erc-ing \T1/ptm/m/n/10 to these classes, a ver-sion
Underfull \hbox (badness 1590) in paragraph at lines 4503--4512
\T1/ptm/m/n/10 of [][][]\T1/pcr/m/n/10 Cholesky[][][]() []\T1/ptm/m/n/10 or [][
][]\T1/pcr/m/n/10 chol[][][]() []\T1/ptm/m/n/10 is typ-i-cally used, e.g., see 
[]\T1/pcr/m/n/10 selectMethod("coerce",
Underfull \hbox (badness 6675) in paragraph at lines 4559--4566
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 Matrix[][][][]\T1/ptm/m/n/10 , typ-i-ca
lly in-her-it-ing from vir-tual class [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]
\T1/ptm/m/n/10 .
Underfull \hbox (badness 6493) in paragraph at lines 4559--4566
[][][]\T1/pcr/m/n/10 denseMatrix[][][] []\T1/ptm/m/n/10 and tra-di-tional vec-t
ors and ma-tri-ces are co-erced to
[2417]
Underfull \hbox (badness 10000) in paragraph at lines 4574--4582
[]\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing if the re-sult must in-herit from vi
r-tual class
Underfull \hbox (badness 1365) in paragraph at lines 4574--4582
[][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 . If []\T1/pcr/m/n/10 
FALSE []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 in-her-its from 
[][][]\T1/pcr/m/n/10 RsparseMatrix[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 4597--4600
[]\T1/ptm/m/n/10 Function [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/
10 , for con-struct-ing ob-jects in-her-it-ing from vir-tual class
[2418]
Underfull \hbox (badness 10000) in paragraph at lines 4641--4645
[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("dsCMatrix", ...) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 2103) in paragraph at lines 4641--4645
[]\T1/pcr/m/n/10 new("dsTMatrix", ...)[]\T1/ptm/m/n/10 , or au-to-mat-i-cally v
ia e.g., []\T1/pcr/m/n/10 as(*, "symmetricMatrix")[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1571) in paragraph at lines 4691--4694
[]\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 
: Re-turns (and stores) the
[2419] [2420]
Underfull \hbox (badness 1221) in paragraph at lines 4834--4837
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "dMatrix"[]\T1/ptm/m/n/10 , by class []
\T1/pcr/m/n/10 "dsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "sparse
Matrix"[]\T1/ptm/m/n/10 , by classes
Underfull \hbox (badness 1400) in paragraph at lines 4844--4847
[]\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10
 : if []\T1/pcr/m/n/10 uplo ==
[2421]
Underfull \hbox (badness 10000) in paragraph at lines 4896--4898
[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("dsyMatrix", ...) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 1365) in paragraph at lines 4932--4935
[]\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10
 , or []\T1/pcr/m/n/10 x = "dsyMatrix"
[2422]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4978--4978
 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ 
internally :[] 
[2423] [2424]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5084--5084
 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim 
= c(5L, 5L),[] 
Underfull \hbox (badness 3635) in paragraph at lines 5139--5143
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ddenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "triangularMatrix"[]\T1/ptm/m/n/10 , di-rectly. Cla
ss
Underfull \hbox (badness 10000) in paragraph at lines 5148--5151
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
Underfull \hbox (badness 10000) in paragraph at lines 5151--5155
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n
/10 : the
[2425] [2426] [2427] [2428]
Underfull \hbox (badness 10000) in paragraph at lines 5399--5401
[]\T1/ptm/m/n/10 a ma-trix fac-tor-iza-tion, typ-i-cally in-her-it-ing from vir
-tual class
Overfull \hbox (29.27832pt too wide) in paragraph at lines 5418--5418
 []    \T1/pcr/m/n/10 all.equal(as(x, "matrix"), as(Reduce(\TS1/cmtt/m/n/10 `\T
1/pcr/m/n/10 %*%\TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 , expand2(y)), "matrix")) 
Overfull \hbox (37.71342pt too wide) in alignment at lines 5449--5449
 [] [] 
[2429]
Underfull \hbox (badness 7064) in paragraph at lines 5477--5494
[]\T1/pcr/m/n/10 signature(x = "p?BunchKaufman")[]\T1/ptm/m/n/10 : ex-pands the
 fac-tor-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 =
Underfull \hbox (badness 3000) in paragraph at lines 5506--5513
[]\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : ex-pands the fac-to
r-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = \OML/cmm/m/it/10 P[]LU$ \T1/pt
m/m/n/10 as
Underfull \hbox (badness 2735) in paragraph at lines 5522--5529
[]\T1/pcr/m/n/10 signature(x = "CHMfactor")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/
10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L)[]\T1/p
tm/m/n/10 .
Underfull \hbox (badness 1337) in paragraph at lines 5529--5544
[]\T1/pcr/m/n/10 signature(x = "sparseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/1
0 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L, U,
Underfull \hbox (badness 2680) in paragraph at lines 5529--5544
\T1/pcr/m/n/10 Q)[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 expand(x)[["Q"]] []\T1/ptm
/m/n/10 and []\T1/pcr/m/n/10 expand2(x)[["P2."]] []\T1/ptm/m/n/10 rep-re-sent t
he same per-
Underfull \hbox (badness 5374) in paragraph at lines 5529--5544
\T1/ptm/m/n/10 mu-ta-tion ma-trix $\OML/cmm/m/it/10 P[]$ \T1/ptm/m/n/10 but hav
e op-po-site []\T1/pcr/m/n/10 margin []\T1/ptm/m/n/10 slots and in-verted []\T1
/pcr/m/n/10 perm []\T1/ptm/m/n/10 slots.
Underfull \hbox (badness 2073) in paragraph at lines 5544--5549
[]\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/10
 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(L, U, P)[]\T1/
ptm/m/n/10 .
[2430] [2431] [2432]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5752--5752
 []\T1/pcr/m/n/9 str(pores <- readMM(system.file("external/pores_1.mtx", packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5753--5753
 []\T1/pcr/m/n/9 str(utm   <- readHB(system.file("external/utm300.rua" , packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5754--5754
 []\T1/pcr/m/n/9 str(lundA <- readMM(system.file("external/lund_a.mtx" , packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5755--5755
 []\T1/pcr/m/n/9 str(lundA <- readHB(system.file("external/lund_a.rsa" , packag
e = "Matrix")))[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5756--5756
 []\T1/pcr/m/n/9 ## https://math.nist.gov/MatrixMarket/data/Harwell-Boeing/coun
terx/counterx.htm[] 
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 []\T1/pcr/m/n/9 str(jgl   <- readMM(system.file("external/jgl009.mtx" , packag
e = "Matrix")))[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5763--5763
 []\T1/pcr/m/n/9 u. <- url("https://www.cise.ufl.edu/research/sparse/RB/Boeing/
msc00726.tar.gz")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5768--5768
 []\T1/pcr/m/n/9 ## Store as MatrixMarket (".mtx") file, here inside temporary 
dir./folder:[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5771--5771
 []\T1/pcr/m/n/9 file.info(MMfile)[,c("size", "ctime")] # (some confirmation of
 the file\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s)[] 
[2433]
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 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume
nts to sparseMatrix():[] 
[2434]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5843--5843
 []    \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans =  TRUE, left =  TRUE),  
crossprod(L, y))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5844--5844
 []    \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans =  TRUE, left = FALSE), t
crossprod(y, L))[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 5923--5923
 []\T1/pcr/m/n/10 .diag2dense(from, kind = ".", shape = "t", packed = FALSE, up
lo = "U")[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 5925--5925
 []\T1/pcr/m/n/10 .m2dense(from, class = ".ge", uplo = "U", diag = "N", trans =
 FALSE)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 5928--5928
 []\T1/pcr/m/n/10 .diag2sparse(from, kind = ".", shape = "t", repr = "C", uplo 
= "U")[] 
[2435]
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 []\T1/pcr/m/n/10 .m2sparse(from, class = ".gC", uplo = "U", diag = "N", trans 
= FALSE)[] 
Underfull \hbox (badness 10000) in paragraph at lines 6000--6002
[]\T1/ptm/m/n/10 a string in []\T1/pcr/m/n/10 c("trace", "sumLog", "prod", "min
", "max",
[2436]
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[][]\T1/pcr/m/n/10 .solve.dgC.*(a, b)[]\T1/ptm/b/n/10 :  []\T1/pcr/m/n/10 .solv
e.dgC.lu(a, b) []\T1/ptm/m/n/10 needs a square ma-trix []\T1/pcr/m/n/10 a[]\T1/
ptm/m/n/10 .
Underfull \hbox (badness 10000) in paragraph at lines 6073--6079
[]\T1/pcr/m/n/10 .solve.dgC.qr(a, b) []\T1/ptm/m/n/10 needs a ``long'' ma-trix 
[]\T1/pcr/m/n/10 a[]\T1/ptm/m/n/10 , with []\T1/pcr/m/n/10 nrow(a) >= ncol(a)[]
\T1/ptm/m/n/10 .
[2437]
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[][]\T1/pcr/m/n/10 .updateCHMfactor(object, parent, mult)[]\T1/ptm/b/n/10 :  []
\T1/pcr/m/n/10 .updateCHMfactor []\T1/ptm/m/n/10 up-
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\T1/ptm/m/n/10 dates []\T1/pcr/m/n/10 object []\T1/ptm/m/n/10 with the re-sult 
of Cholesky fac-tor-iz-ing []\T1/pcr/m/n/10 F(parent) + mult[1] *
Underfull \hbox (badness 2443) in paragraph at lines 6087--6096
\T1/pcr/m/n/10 diag(nrow(parent))[]\T1/ptm/m/n/10 , i.e., []\T1/pcr/m/n/10 F(pa
rent) []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 mult[1] []\T1/ptm/m/n/10 times the
 iden-tity ma-trix,
[2438] [2439] [2440] [2441]pdfTeX warning (ext4): destination with the same ide
ntifier (name{Rfn.image}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6399 \aliasA{image}{image-methods}{image}
                                            [2442] [2443]
Underfull \hbox (badness 4120) in paragraph at lines 6495--6498
[]\T1/ptm/m/n/10 All meth-ods cur-rently end up call-ing the method for the [][
][]\T1/pcr/m/n/10 dgTMatrix[][][] []\T1/ptm/m/n/10 class. Use
Overfull \hbox (47.58038pt too wide) in paragraph at lines 6514--6514
 []\T1/pcr/m/n/9 stopifnot(!is.null(leg <- imgC$legend), is.list(leg$right)) # 
failed for 2 days ..[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6534--6534
 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col
/row) indices:[] 
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 [] \T1/pcr/m/n/9 I2 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE,    
    border.col=NA)[] 
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 [] \T1/pcr/m/n/9 I3 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd
=2, border.col=NA)[] 
Overfull \hbox (144.78027pt too wide) in paragraph at lines 6545--6545
 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor
der.col = adjustcolor("skyblue", 1/2))[] 
[2444]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6553--6553
 []\T1/pcr/m/n/9 image(USCounties, useRaster = TRUE) # should not suffer from a
nti-aliasing[] 
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 []   \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi
ly zoom in and out[] 
[2445]
Underfull \hbox (badness 10000) in paragraph at lines 6684--6687
[]\T1/pcr/m/n/10 signature(x = "indMatrix", y = "Matrix") []\T1/ptm/m/n/10 and 
oth-ers listed by
Underfull \hbox (badness 1286) in paragraph at lines 6684--6687
[]\T1/pcr/m/n/10 showMethods("%*%", classes = "indMatrix")[]\T1/ptm/m/n/10 : ma
-trix prod-ucts im-ple-mented
Underfull \hbox (badness 10000) in paragraph at lines 6687--6690
[]\T1/pcr/m/n/10 signature(from = "numeric", to = "indMatrix")[]\T1/ptm/m/n/10 
: sup-port-ing typ-i-cal
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[]\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : s
up-port-ing []\T1/pcr/m/n/10 indMatrix
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[]\T1/pcr/m/n/10 signature(x = "indMatrix")[]\T1/ptm/m/n/10 : row and
Underfull \hbox (badness 1337) in paragraph at lines 6707--6711
[]\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : 
Kro-necker prod-uct of
[2446]
Underfull \hbox (badness 1776) in paragraph at lines 6717--6726
[]\T1/ptm/m/n/10 Fabian Scheipl at `\T1/pcr/m/n/10 uni-muenchen.de\T1/ptm/m/n/1
0 ', build-ing on the ex-ist-ing class [][][]\T1/pcr/m/n/10 pMatrix[][][] []\T1
/ptm/m/n/10 af-ter
Underfull \hbox (badness 1253) in paragraph at lines 6717--6726
\T1/ptm/m/n/10 a nice hike's con-ver-sa-tion with Mar-tin Maech-ler. Meth-ods f
or [][][]\T1/pcr/m/n/10 crossprod[][][](x, y) []\T1/ptm/m/n/10 and
[2447]
Underfull \hbox (badness 1509) in paragraph at lines 6810--6812
[]\T1/ptm/m/n/10 an in-te-ger off-set, in-di-cat-ing that the re-sult should be
 a per-mu-ta-tion of
Underfull \hbox (badness 10000) in paragraph at lines 6837--6841
[]\T1/pcr/m/n/10 invertPerm(p) []\T1/ptm/m/n/10 re-turns an in-te-ger vec-tor o
f length []\T1/pcr/m/n/10 length(p) []\T1/ptm/m/n/10 such that
Underfull \hbox (badness 4441) in paragraph at lines 6837--6841
[]\T1/pcr/m/n/10 p[invertPerm(p)] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 invertP
erm(p)[p] []\T1/ptm/m/n/10 are both []\T1/pcr/m/n/10 seq_along(p)[]\T1/ptm/m/n/
10 , i.e., the
[2448]
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 []\T1/pcr/m/n/9 ## Product of transpositions (1 2)(2 1)(4 3)(6 8)(10 1) = (3 4
)(6 8)(1 10)[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.anyNA}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6888 \aliasA{anyNA}{is.na-methods}{anyNA}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.is.finite}) has been already used, duplicate 
ignored
<to be read again> 
                   \relax 
l.6895 ...asA{is.finite}{is.na-methods}{is.finite}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.is.infinite}) has been already used, d
uplicate ignored
<to be read again> 
                   \relax 
l.6903 ...is.infinite}{is.na-methods}{is.infinite}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.is.na}) has been already used, duplica
te ignored
<to be read again> 
                   \relax 
l.6911 \aliasA{is.na}{is.na-methods}{is.na}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.is.nan}) has been already used, duplicate ign
ored
<to be read again> 
                   \relax 
l.6918 \aliasA{is.nan}{is.na-methods}{is.nan}
                                              [2449] [2450]pdfTeX warning (ext4
): destination with the same identifier (name{Rfn.isSymmetric}) has been alread
y used, duplicate ignored
<to be read again> 
                   \relax 
l.7077 ...etric}{isSymmetric-methods}{isSymmetric}
                                                   [2451]
Overfull \hbox (138.78088pt too wide) in paragraph at lines 7124--7124
 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub
le.eps, tol1 = 8 * tol, ...)[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 7126--7126
 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub
le.eps, ...)[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 7181--7181
 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if
 not "formally"[] 
[2452]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 7185--7185
 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g
eneric from base[] 
[2453]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 7268--7268
 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even 
if not "formally"[] 
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 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames 
= FALSE) 
[2454]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7371--7371
 []\T1/pcr/m/n/9 stopifnot(all(K1 <- KhatriRao(nd, zm) == 0), identical(dim(K1)
, c(12L, 4L)),[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7372--7372
 []          \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2)
, c(12L, 4L)))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7379--7379
 []  \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di
mnames(Kmd)))[] 
[2455]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.kro
necker}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7453 ...kronecker}{kronecker-methods}{kronecker}
                                                   [2456]
Underfull \hbox (badness 1062) in paragraph at lines 7550--7553
[]\T1/pcr/m/n/10 ldenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den
se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both
[2457]
Underfull \hbox (badness 6063) in paragraph at lines 7576--7579
[]\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call
y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2458pdfTeX warning (ext4): destination with the same identifier (name{Rfn.*,nd
iMatrix,Matrix.Rdash.method}) has been already used, duplicate ignored
<argument> ...shipout:D \box_use:N \l_shipout_box 
                                                  
l.7705 crossprod(nM) # pattern sparse
                                     ]
Underfull \hbox (badness 2635) in paragraph at lines 7736--7741
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/
10 "ldenseMatrix"[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 4229) in paragraph at lines 7736--7741
\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class 
[]\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri
x"[]\T1/ptm/m/n/10 , by class
Underfull \hbox (badness 10000) in paragraph at lines 7744--7747
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ); use, e.g.,
[2459]
Underfull \hbox (badness 10000) in paragraph at lines 7801--7811
[]\T1/pcr/m/n/10 lsTMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltTMatrix[]\T
1/ptm/m/n/10 ) or in com-pressed column-oriented form (class
Underfull \hbox (badness 1242) in paragraph at lines 7801--7811
[][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pc
r/m/n/10 lgCMatrix[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lsCMatrix[]\T1/ptm/m/n/10
 , and []\T1/pcr/m/n/10 ltCMatrix[]\T1/ptm/m/n/10 ) or--\T1/ptm/m/it/10 rarely\
T1/ptm/m/n/10 --in
[2460]
Underfull \hbox (badness 3179) in paragraph at lines 7883--7886
[]\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal
ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2461]
Underfull \hbox (badness 10000) in paragraph at lines 7968--7971
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2462]
Underfull \hbox (badness 10000) in paragraph at lines 8029--8032
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2463] [2464] [2465]
Underfull \hbox (badness 10000) in paragraph at lines 8267--8270
[]\T1/ptm/m/n/10 vector of all non-zero en-tries of []\T1/pcr/m/n/10 x[]\T1/ptm
/m/n/10 ; ex-ists \T1/ptm/b/n/10 only \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 as(x
,
Underfull \hbox (badness 1490) in paragraph at lines 8289--8291
[]\T1/pcr/m/n/10 mat2triplet() []\T1/ptm/m/n/10 is con-cep-tu-ally the \T1/ptm/
m/it/10 in-verse \T1/ptm/m/n/10 func-tion of [][][]\T1/pcr/m/n/10 spMatrix[][][
] []\T1/ptm/m/n/10 and (one case of)
[2466]pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rp
cent.*.Rpcent.}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.8310 ...*\%}{matmult-methods}{.Rpcent.*.Rpcent.}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.crossprod}) has been already used, dup
licate ignored
<to be read again> 
                   \relax 
l.8384 ...A{crossprod}{matmult-methods}{crossprod}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.tcrossprod}) has been already used, du
plicate ignored
<to be read again> 
                   \relax 
l.8460 ...tcrossprod}{matmult-methods}{tcrossprod}
                                                  
Underfull \hbox (badness 1881) in paragraph at lines 8546--8552
\T1/ptm/m/n/10 ally im-ple-mented ef-fi-ciently with-out com-put-ing [][][]\T1/
pcr/m/n/10 t[][][](.)[]\T1/ptm/m/n/10 's un-nec-es-sar-ily. They also re-turn
[2467]
Underfull \hbox (badness 10000) in paragraph at lines 8615--8618
[]\T1/pcr/m/n/10 signature(x = "dgeMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
Underfull \hbox (badness 10000) in paragraph at lines 8618--8623
[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-tures (use
Underfull \hbox (badness 3557) in paragraph at lines 8618--8623
[]\T1/pcr/m/n/10 showMethods("%*%", class="dtrMatrix")[]\T1/ptm/m/n/10 ): ma-tr
ix mul-ti-pli-ca-tion. Mul-ti-
Underfull \hbox (badness 6608) in paragraph at lines 8623--8627
\T1/ptm/m/n/10 sig-na-tures, use []\T1/pcr/m/n/10 showMethods("crossprod", clas
s = "dgeMatrix")[]\T1/ptm/m/n/10 , ma-trix
Underfull \hbox (badness 1552) in paragraph at lines 8633--8634
[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-
[2468] [2469] [2470]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.det}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.8856 \aliasA{det}{Matrix-class}{det}
                                      
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[]\T1/pcr/m/n/10 signature(x = "Matrix", value = "list")[]\T1/ptm/m/n/10 : set 
the []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 to a
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Underfull \hbox (badness 10000) in paragraph at lines 8955--8957
[]\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This 
re-lies on a cor-rect
[2471] [2472] [2473]
Underfull \hbox (badness 10000) in paragraph at lines 9125--9129
[]\T1/pcr/m/n/10 CholeskyFactorization[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Bunch
KaufmanFactorization[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 9148--9150
[]\T1/pcr/m/n/10 signature(x = "MatrixFactorization", logarithm =
Underfull \hbox (badness 10000) in paragraph at lines 9165--9168
[]\T1/pcr/m/n/10 signature(obj = "MatrixFactorization")[]\T1/ptm/m/n/10 : re-tu
rns []\T1/pcr/m/n/10 obj []\T1/ptm/m/n/10 with
Underfull \hbox (badness 3019) in paragraph at lines 9174--9177
[]\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 CholeskyFactorization[]\T
1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 Cholesky[][][][]\T1/ptm/m/n/10 , [][
][]\T1/pcr/m/n/10 pCholesky[][][][]\T1/ptm/m/n/10 , and
[2474]
Underfull \hbox (badness 10000) in paragraph at lines 9178--9180
[]\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 BunchKaufmanFactorization
[]\T1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 BunchKaufman[][][] []\T1/ptm/m/n
/10 and
Underfull \hbox (badness 10000) in paragraph at lines 9193--9196
[]\T1/ptm/m/n/10 Generic func-tions [][][]\T1/pcr/m/n/10 expand1[][][] []\T1/pt
m/m/n/10 and [][][]\T1/pcr/m/n/10 expand2[][][] []\T1/ptm/m/n/10 for con-struct
-ing ma-trix fac-tors from
Underfull \hbox (badness 1062) in paragraph at lines 9222--9225
[]\T1/pcr/m/n/10 ndenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den
se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both
Underfull \hbox (badness 6063) in paragraph at lines 9254--9257
[]\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call
y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2475]
Underfull \hbox (badness 3312) in paragraph at lines 9311--9313
[]\T1/ptm/m/n/10 logical in-di-cat-ing if []\T1/pcr/m/n/10 X <- (X + t(X))/2 []
\T1/ptm/m/n/10 should be done, af-ter []\T1/pcr/m/n/10 X <-
[2476] [2477]
Overfull \hbox (85.38034pt too wide) in paragraph at lines 9414--9414
 []   \T1/pcr/m/n/9 all.equal(n.A.m, unname(as.matrix(n.A$mat)), tolerance = 1e
-15)# seen rel.d.= 1.46e-16[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 9454--9454
 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a
ll in this example[] 
[2478]
Underfull \hbox (badness 2635) in paragraph at lines 9507--9512
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/
10 "ndenseMatrix"[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 4229) in paragraph at lines 9507--9512
\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class 
[]\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri
x"[]\T1/ptm/m/n/10 , by class
Underfull \hbox (badness 10000) in paragraph at lines 9515--9518
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ); use, e.g.,
[2479]
Underfull \hbox (badness 2521) in paragraph at lines 9583--9589
[]\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N
ote that these co-er-cions
[2480]
Underfull \hbox (badness 1867) in paragraph at lines 9696--9698
[]\T1/ptm/m/n/10 fast sim-
[2481]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.nor
m}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9738 \aliasA{norm}{norm-methods}{norm}
                                         [2482]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9833--9833
 []\T1/pcr/m/n/9 A <- sparseMatrix(i, j, x = x)                      ##  8 x 10
 "dgCMatrix"[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9834--9834
 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10
 "dsCMatrix"[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9835--9835
 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10
 "dtCMatrix"[] 
Underfull \hbox (badness 2401) in paragraph at lines 9880--9890
[]\T1/ptm/m/n/10 These can be stored in the ``triplet'' form ([][][]\T1/pcr/m/n
/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pcr/m/n/10 ngTMatri
x[]\T1/ptm/m/n/10 ,
[2483]
Underfull \hbox (badness 3179) in paragraph at lines 9951--9954
[]\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal
ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2484]
Underfull \hbox (badness 10000) in paragraph at lines 10031--10034
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2485]
Underfull \hbox (badness 10000) in paragraph at lines 10095--10098
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2486]
Underfull \hbox (badness 10000) in paragraph at lines 10169--10171
[]\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , 
though
[2487] [2488] [2489]
Underfull \hbox (badness 10000) in paragraph at lines 10383--10386
[]\T1/pcr/m/n/10 signature(x = "pMatrix", y = "Matrix") []\T1/ptm/m/n/10 and ot
h-ers listed by
Underfull \hbox (badness 8189) in paragraph at lines 10383--10386
[]\T1/pcr/m/n/10 showMethods("%*%", classes = "pMatrix")[]\T1/ptm/m/n/10 : ma-t
rix prod-ucts im-ple-mented
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[]\T1/pcr/m/n/10 signature(from = "numeric", to = "pMatrix")[]\T1/ptm/m/n/10 : 
sup-port-ing typ-i-cal
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[]\T1/pcr/m/n/10 signature(a = "pMatrix", b = "missing")[]\T1/ptm/m/n/10 : the 
in-verse per-mu-ta-tion ma-trix,
[2490]
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 []               \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD
iag = TRUE,[] 
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 []\T1/pcr/m/n/10 printSpMatrix(x, digits = NULL, maxp = max(100L, getOption("m
ax.print")),[] 
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 []              \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln
ames = TRUE,[] 
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 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption("
max.print")),[] 
[2491]
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 []              \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln
ames = TRUE,[] 
Underfull \hbox (badness 3989) in paragraph at lines 10499--10509
[]\T1/ptm/m/n/10 logical or string spec-i-fy-ing if and how col-umn names of []
\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 should
Underfull \hbox (badness 10000) in paragraph at lines 10499--10509
\T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro
m
[2492]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr}
) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10601 \aliasA{qr}{qr-methods}{qr}
                                    [2493] [2494]
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 []    \T1/pcr/m/n/9 all.equal(qr.coef(qr.A1, b), drop(solve(crossprod(A1), cro
ssprod(A1, b))))[] 
[2495]
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 []    \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 qr.coef\TS1/pcr/m/n/9 ' \
T1/pcr/m/n/9 computes unique least squares solution of "nearby" problem[] 
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 []    \T1/pcr/m/n/9 ## Z x = b for some full rank Z ~ A, currently without war
ning {FIXME} ![] 
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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Underfull \hbox (badness 2005) in paragraph at lines 10845--10851
[]\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 
qr[][][](x, tol,
Underfull \hbox (badness 10000) in paragraph at lines 10862--10865
[]\T1/ptm/m/n/10 is for back com-pat-i-bil-ity; for dense []\T1/pcr/m/n/10 x[]\
T1/ptm/m/n/10 , it cor-re-sponds to
[2497] [2498]
Overfull \hbox (85.38034pt too wide) in paragraph at lines 10959--10959
 []\T1/pcr/m/n/9 ## The meaning of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 tol\TS1/pcr/m/
n/9 ' \T1/pcr/m/n/9 for method="qrLINPACK" and *dense* x is not entirely "scale
 free"[] 
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 []\T1/pcr/m/n/9 sapply(meths, function(.m.) rankMatrix(M15, method = .m., tol 
= 1e-7)) # all 14[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 10982--10982
 []\T1/pcr/m/n/9 (st1 <- system.time(r1 <- rankMatrix(L)))                # war
ning+ ~1.5 sec (2013)[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 10983--10983
 []\T1/pcr/m/n/9 (st2 <- system.time(r2 <- rankMatrix(L, method = "qr"))) # con
siderably faster![] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rcond}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11002 \aliasA{rcond}{rcond-methods}{rcond}
                                             [2499] [2500]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11118--11118
 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not
 have full rank[] 
[2501] [2502]
Underfull \hbox (badness 2150) in paragraph at lines 11284--11292
\T1/ptm/m/n/10 dices, if not []\T1/pcr/m/n/10 symmetric [][]sample.int[][][](nr
ow*ncol, nnz)[]\T1/ptm/m/n/10 , then---if []\T1/pcr/m/n/10 rand.x []\T1/ptm/m/n
/10 is not
[2503] [2504]
Underfull \hbox (badness 5147) in paragraph at lines 11441--11444
[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 SchurFactorization[][][][]\T1/ptm/m
/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1/pt
m/m/n/10 , by class
[2505]
Underfull \hbox (badness 3179) in paragraph at lines 11456--11459
[]\T1/pcr/m/n/10 signature(from = "Schur", logarithm = "logical")[]\T1/ptm/m/n/
10 : com-putes
[2506] [2507]
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 []    \T1/pcr/m/n/9 all.equal(e1, e3[order(Mod(e3), decreasing = TRUE)], toler
ance = 1e-13)[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solve}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11630 \aliasA{solve}{solve-methods}{solve}
                                             [2508]
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 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", "
D", "P", "Pt"), ...)[] 
Underfull \hbox (badness 1147) in paragraph at lines 11766--11772
[]\T1/ptm/m/n/10 a vec-tor, [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/
n/10 , ma-trix, or [][][]\T1/pcr/m/n/10 Matrix[][][] []\T1/ptm/m/n/10 sat-is-fy
-ing []\T1/pcr/m/n/10 NROW(b) ==
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[]\T1/ptm/m/n/10 Methods for dense []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are buil
t on 14 LA-PACK rou-tines: class []\T1/pcr/m/n/10 d..Matrix[]\T1/ptm/m/n/10 , w
here
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[]\T1/ptm/m/n/10 Methods for sparse []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are bui
lt on CXS-parse rou-tines []\T1/pcr/m/n/10 cs_lsolve[]\T1/ptm/m/n/10 , []\T1/pc
r/m/n/10 cs_usolve[]\T1/ptm/m/n/10 , and
[2509]
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 []\T1/pcr/m/n/9 image(ia0 <- solve(a, tol = 0)) # checker board, dense [but re
ally, a is singular!][] 
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 []  \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on
 [FIXME ??] only[] 
[2510]
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[]\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu
la and data frame
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 []   \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs
parse)[] 
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 []   \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs
parse,[] 
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[]\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][
][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject,
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[]\T1/ptm/m/n/10 character string or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or 
(co-er-ca-ble to)
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[]\T1/pcr/m/n/10 "[][]sparseMatrix[][][]"[]\T1/ptm/m/n/10 , spec-i-fy-ing the c
on-trasts to be ap-plied to the
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[]\T1/ptm/m/n/10 should fac-tors have un-used lev-els dropped? The de-fault for
Underfull \hbox (badness 2828) in paragraph at lines 11963--11967
[]\T1/pcr/m/n/10 sparse.model.matrix []\T1/ptm/m/n/10 has been changed to []\T1
/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , 2010-07, for
[2511]
Underfull \hbox (badness 1668) in paragraph at lines 11978--11983
[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/
m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc
r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse
Underfull \hbox (badness 3291) in paragraph at lines 12005--12010
[]\T1/pcr/m/n/10 model.Matrix(sparse = TRUE) []\T1/ptm/m/n/10 from pack-age [][
]\T1/ptm/b/n/10 Ma-trix-Mod-els[][] \T1/ptm/m/n/10 may be nowa-days be
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\T1/ptm/m/n/10 prefer-able to []\T1/pcr/m/n/10 sparse.model.matrix[]\T1/ptm/m/n
/10 , as []\T1/pcr/m/n/10 model.Matrix []\T1/ptm/m/n/10 re-turns an ob-ject of 
class
[2512]
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 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0, 0),[] 
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 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop=FALSE),"CsparseMatrix"), dim(M)
 == c(3, 0),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12060--12060
 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0,12),[] 
[2513]
Underfull \hbox (badness 2961) in paragraph at lines 12122--12125
[]\T1/pcr/m/n/10 signature(from = "sparseLU", logarithm = "logical")[]\T1/ptm/m
/n/10 : com-
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 []\T1/pcr/m/n/9 A <- as(readMM(system.file("external", "pores_1.mtx", package 
= "Matrix")),[] 
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
[2514]
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(dn[1L
], list(NULL)),[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12186--12186
 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
Underfull \hbox (badness 10000) in paragraph at lines 12211--12213
[]\T1/ptm/m/n/10 This in-ter-face is rec-om-mended over di-rect con-struc-tion 
via calls such as
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 []             \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = 
TRUE,[] 
[2515]
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\T1/ptm/m/n/10 of the sparse ma-trix re-sult, i.e., spec-i-fy-ing one of the vi
r-tual classes
[2516]
Underfull \hbox (badness 10000) in paragraph at lines 12345--12348
[]\T1/ptm/m/n/10 The stan-dard \T1/phv/m/n/10 R [][][]\T1/pcr/m/n/10 xtabs[][][
](*, sparse=TRUE)[]\T1/ptm/m/n/10 , for sparse ta-bles and
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 []\T1/pcr/m/n/9 (A <- sparseMatrix(i, j, x = x))                    ##  8 x 10
 "dgCMatrix"[] 
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 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10
 "dsCMatrix"[] 
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 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10
 "dtCMatrix"[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12368--12368
 []\T1/pcr/m/n/9 (AA <- sparseMatrix(c(1,3:8), c(2,9,6:10), x = 7 * (1:7), dims
 = c(10,20)))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12371--12371
 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar
e consistent[] 
[2517]
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 []\T1/pcr/m/n/9 ## pointer vectors can be used, and the (i,x) slots are sorted
 if necessary:[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 12395--12395
 []\T1/pcr/m/n/9 m <- sparseMatrix(i = c(3,1, 3:2, 2:1), p= c(0:2, 4,4,6), x = 
1:6, dimnames = dn)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12421--12421
 []\T1/pcr/m/n/9 ## pointers example in converting from other sparse matrix rep
resentations.[] 
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 []   \T1/pcr/m/n/9 nzchar(dfil <- system.file("extdata", "rua_32_ax.rua", pack
age = "SparseM"))) {[] 
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 []  \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims =
 X@dimension)[] 
[2518]
Underfull \hbox (badness 6842) in paragraph at lines 12516--12519
[]\T1/pcr/m/n/10 (x = "sparseMatrix", logarithm=TRUE)[]\T1/ptm/m/n/10 : [][][]\
T1/pcr/m/n/10 determinant[][][]() []\T1/ptm/m/n/10 meth-ods
Underfull \hbox (badness 10000) in paragraph at lines 12551--12555
[][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/10 , and its ref-er-ences,
 such as [][][]\T1/pcr/m/n/10 xtabs[][][](*, sparse=TRUE)[]\T1/ptm/m/n/10 , or
[2519] [2520]
Underfull \hbox (badness 2961) in paragraph at lines 12735--12738
[]\T1/pcr/m/n/10 signature(from = "sparseQR", logarithm = "logical")[]\T1/ptm/m
/n/10 : com-
[2521]
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[]\T1/ptm/m/n/10 The many aux-il-iary func-tions for QR fac-tor-iza-tions: [][]
[]\T1/pcr/m/n/10 qr.Q[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.R[][][][]
\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.X[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 qr.coef[][][][]\T1/ptm/m/n/10 ,
[2522]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(m, m), Dimnames = c(dn[1L
], list(NULL)),[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
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Overfull \hbox (42.18039pt too wide) in paragraph at lines 12883--12883
 []    \T1/pcr/m/n/9 ae2(qrc <- qr.coef  (qr.A, b), with(e.qr.A, solve(R1 %*% P
2., t(qrQ)) %*% b))[] 
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[]\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case
 a
[2524]
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[]\T1/ptm/m/n/10 Sparse Vec-tor Classes: The vir-tual mother class []\T1/pcr/m/
n/10 "sparseVector" []\T1/ptm/m/n/10 has the five ac-
Underfull \hbox (badness 3679) in paragraph at lines 13039--13045
\T1/ptm/m/n/10 tual daugh-ter classes []\T1/pcr/m/n/10 "dsparseVector"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "isparseVector"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "
lsparseVector"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/
n/10 co-erces sparse
[2525]
Underfull \hbox (badness 10000) in paragraph at lines 13118--13123
[]\T1/pcr/m/n/10 (x = "nsparseVector")[]\T1/ptm/m/n/10 : re-turn [][][]\T1/pcr/
m/n/10 logical[][][] []\T1/ptm/m/n/10 or
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[][][]\T1/pcr/m/n/10 sparseVector[][][]() []\T1/ptm/m/n/10 for friendly con-str
uc-tion of sparse vec-tors (apart from []\T1/pcr/m/n/10 as(*,
[2526]
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 []\T1/pcr/m/n/10 spMatrix(nrow, ncol, i = integer(0L), j = integer(0L), x = do
uble(0L)) 
Underfull \hbox (badness 2310) in paragraph at lines 13259--13265
[][][]\T1/pcr/m/n/10 Matrix[][][](*, sparse=TRUE) []\T1/ptm/m/n/10 for the more
 usual con-struc-tor of such ma-tri-ces. Then,
[2528]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[<.
Rdash.}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.13311 ...\Rdash{}}{subassign-methods}{[<.Rdash.}
                                                  
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[]\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back
[2529]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.13445 \aliasA{[}{subscript-methods}{[}
                                         [2530]
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\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 triangularMatrix[][][][]\T1/ptm/m/n
/10 , and, e.g., [][][]\T1/pcr/m/n/10 dsyMatrix[][][] []\T1/ptm/m/n/10 for nu-m
eric \T1/ptm/m/it/10 dense \T1/ptm/m/n/10 ma-tri-ces, or
[2531]
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[]\T1/ptm/m/n/10 These are generic func-tions with sev-eral meth-ods for dif-fe
r-ent ma-trix classes, use e.g.,
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[]\T1/pcr/m/n/10 symmpart(x) []\T1/ptm/m/n/10 re-turns a sym-met-ric ma-trix, i
n-her-it-ing from [][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 o
r
[2532]
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[]\T1/pcr/m/n/10 skewpart(x) []\T1/ptm/m/n/10 re-turns a skew-symmetric ma-trix
, in-her-it-ing from [][][]\T1/pcr/m/n/10 generalMatrix[][][][]\T1/ptm/m/n/10 ,
[2533]
Underfull \hbox (badness 6641) in paragraph at lines 13747--13750
[]\T1/ptm/m/n/10 Currently, [][][]\T1/pcr/m/n/10 Schur[][][][]\T1/ptm/m/n/10 , 
[][][]\T1/pcr/m/n/10 isSymmetric[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 as
() []\T1/ptm/m/n/10 (i.e. [][][]\T1/pcr/m/n/10 coerce[][][][]\T1/ptm/m/n/10 ) h
ave meth-ods with
Underfull \hbox (badness 5133) in paragraph at lines 13783--13787
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 "TsparseMatrix" []\T1/ptm/m/n/10 class is
 the vir-tual class of all sparse ma-tri-ces coded in
Underfull \hbox (badness 2818) in paragraph at lines 13783--13787
\T1/ptm/m/n/10 triplet form. Since it is a vir-tual class, no ob-jects may be c
re-ated from it. See
[2534] [2535]
Underfull \hbox (badness 1668) in paragraph at lines 13910--13913
[][][]\T1/pcr/m/n/10 pack[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 unpac
k[][][][]\T1/ptm/m/n/10 ; its vir-tual "com-ple-ment" []\T1/pcr/m/n/10 "[][]pac
kedMatrix[][][]"[]\T1/ptm/m/n/10 ; its proper sub-classes
[2536]
Underfull \hbox (badness 10000) in paragraph at lines 14021--14027
[]\T1/ptm/m/n/10 GAL lat-tice file `\T1/pcr/m/n/10 usc_q.GAL\T1/ptm/m/n/10 ' (r
e-trieved in 2008 from
[2537] [2538] [2539]) (./boot-pkg.tex [2540]
Chapter 18.
[2541] [2542] [2543] [2544] [2545] [2546] [2547]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 532--532
 []\T1/pcr/m/n/10 boot(data, statistic, R, sim = "ordinary", stype = c("i", "f"
, "w"), 
[2548]
Underfull \hbox (badness 1325) in paragraph at lines 570--577
[]\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sim-u-la-tion r
e-quired. Pos-si-ble
Underfull \hbox (badness 1275) in paragraph at lines 585--590
[]\T1/ptm/m/n/10 An in-te-ger vec-tor or fac-tor spec-i-fy-ing the strata for m
ulti-sample prob-
[2549] [2550] [2551]
Underfull \hbox (badness 1881) in paragraph at lines 826--828
[]\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi
-cient boot-strap sim-u-la-tion.
Underfull \hbox (badness 6493) in paragraph at lines 853--857
[][][]\T1/pcr/m/n/10 boot.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bo
ot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 censboot[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 empinf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 j
ack.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 tilt.boot[][][][]\T
1/ptm/m/n/10 ,
[2552]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 887--887
 []\T1/pcr/m/n/9 nuke.lm <- glm(log(cost) ~ date+log(cap)+ne+ct+log(cum.n)+pt, 
data = nuke)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2553]
[2554] [2555]
Underfull \hbox (badness 1496) in paragraph at lines 1084--1093
[]\T1/ptm/m/n/10 If sup-plied, a value to be used as an es-ti-mate of the vari-
ance of the
Underfull \hbox (badness 2005) in paragraph at lines 1084--1093
\T1/ptm/m/n/10 statis-tic for the nor-mal ap-prox-i-ma-tion and stu-den-tized i
n-ter-vals. If it
Underfull \hbox (badness 2343) in paragraph at lines 1084--1093
\T1/ptm/m/n/10 is not sup-plied and []\T1/pcr/m/n/10 length(index) []\T1/ptm/m/
n/10 is 2 then []\T1/pcr/m/n/10 var.t0 []\T1/ptm/m/n/10 de-faults to
Underfull \hbox (badness 2150) in paragraph at lines 1105--1111
[]\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est. The de-fa
ult value is
[2556] [2557] [2558] [2559]
Underfull \hbox (badness 1571) in paragraph at lines 1445--1447
[]\T1/ptm/m/n/10 Rawlings, J.O. (1988) \T1/ptm/m/it/10 Ap-plied Re-gres-sion An
al-y-sis\T1/ptm/m/n/10 . Wadsworth and Brooks/Cole Statis-
[2560] [2561] [2562] [2563] [2564]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1738--1738
 []\T1/pcr/m/n/10 censboot(data, statistic, R, F.surv, G.surv, strata = matrix(
1,n,2), 
[2565] [2566] [2567]
Underfull \vbox (badness 10000) has occurred while \output is active [2568]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 2013--2013
 []\T1/pcr/m/n/9 mel.cox <- coxph(Surv(time, status == 1) ~ ns(thickness, df=4)
 + strata(ulcer),[] 
[2569]
Underfull \hbox (badness 6268) in paragraph at lines 2084--2086
[]\T1/ptm/m/n/10 The length of time (in months) that the res-i-dent spent at Ch
an-ning House.
[2570] [2571] [2572]
Underfull \hbox (badness 1565) in paragraph at lines 2338--2343
[]\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est on the ori
g-i-nal data set
[2573]
Underfull \hbox (badness 4595) in paragraph at lines 2363--2368
\T1/ptm/m/n/10 are passed un-changed ev-ery time []\T1/pcr/m/n/10 boot.out$stat
istic []\T1/ptm/m/n/10 is called.
Underfull \hbox (badness 1881) in paragraph at lines 2432--2434
[]\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi
-cient boot-strap sim-u-la-tion.
Underfull \hbox (badness 2057) in paragraph at lines 2440--2441
[][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 empinf[]
[][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 k3.linear[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 linear.approx[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
saddle.distn[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.spline[][][][]
\T1/ptm/m/n/10 ,
[2574] [2575]
Underfull \hbox (badness 1077) in paragraph at lines 2536--2540
[]\T1/ptm/m/n/10 The un-bi-ased es-ti-ma-tor uses a mul-ti-plier of []\T1/pcr/m
/n/10 n/((n-1)*(n-2)) []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 n []\T1/ptm/m/n/1
0 is the sam-ple
Underfull \hbox (badness 1112) in paragraph at lines 2536--2540
\T1/ptm/m/n/10 size, if []\T1/pcr/m/n/10 unbiased []\T1/ptm/m/n/10 is []\T1/pcr
/m/n/10 FALSE []\T1/ptm/m/n/10 then a mul-ti-plier of []\T1/pcr/m/n/10 1/n []\T
1/ptm/m/n/10 is used. This is mul-ti-plied by
[2576] [2577] [2578] [2579] [2580]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2895--2895
 []\T1/pcr/m/n/10 EEF.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t 
= 25, 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2897--2897
 []\T1/pcr/m/n/10 EL.profile(y, tmin  =  min(y) + 0.1, tmax = max(y) - 0.1, n.t
  =  25,[] 
[2581] [2582] [2583]
Underfull \hbox (badness 3861) in paragraph at lines 3105--3108
[][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.arr
ay[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.ci[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 control[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 jack
.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 linear.approx[][][][]\
T1/ptm/m/n/10 ,
[2584]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 3158--3158
 []\T1/pcr/m/n/10 envelope(boot.out = NULL, mat = NULL, level = 0.95, index = 1
:ncol(mat)) 
[2585] [2586] [2587]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3378--3378
 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t
he resampling 
[2588] [2589] [2590] [2591] [2592] [2593] [2594]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838
 []             \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q
 = NULL)[] 
[2595] [2596]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977
 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 =
 grav.z0[3])[] 
[2597] [2598] [2599] [2600]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259
 []\T1/pcr/m/n/9 #  To draw the jackknife-after-bootstrap plot for the head siz
e data as in 
[2601] [2602]
Underfull \hbox (badness 10000) in paragraph at lines 4362--4364
[]\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o
f
Underfull \hbox (badness 1430) in paragraph at lines 4371--4375
\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the
r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a
re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to
[2603] [2604] [2605] [2606] [2607] [2608] [2609] [2610] [2611]
Underfull \hbox (badness 3000) in paragraph at lines 4959--4962
[]\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put 
of a call to
[2612] [2613] [2614] [2615]
Underfull \hbox (badness 2293) in paragraph at lines 5238--5241
[]\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the 
boot-strap
Underfull \hbox (badness 1668) in paragraph at lines 5238--5241
\T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl
os-est to
[2616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317
 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat
a = grav1[, 2])[] 
[2617] [2618] [2619] [2620] [2621] [2622] [2623] [2624]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866
 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c
ity.sp1$spa[1][] 
[2625]
Underfull \hbox (badness 1127) in paragraph at lines 5988--6006
[]\T1/ptm/m/n/10 etc. un-til a point is found with a cdf ap-prox-i-ma-tion less
 than []\T1/pcr/m/n/10 min(alpha)/10[]\T1/ptm/m/n/10 , then
[2626]
Underfull \hbox (badness 2837) in paragraph at lines 6021--6024
[]\T1/ptm/m/n/10 The re-turned value is an ob-ject of class []\T1/pcr/m/n/10 "s
addle.distn"[]\T1/ptm/m/n/10 . See the help file for
[2627] [2628] [2629] [2630]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6306--6306
 []\T1/pcr/m/n/9 # This example is taken from Exercise 7.5 of Gill, Murray and 
Wright (1991). 
[2631] [2632]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6495--6495
 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t
he resampling 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6497--6497
 []\T1/pcr/m/n/9 # value of the test statistic 1.84.  In the book exponential t
ilting was used[] 
[2633] [2634] [2635]
Underfull \hbox (badness 1596) in paragraph at lines 6742--6746
[]\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sec-ond ar-gu-m
ent ex-pected by
[2636] [2637]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6902--6902
 []                        \T1/pcr/m/n/9 stype = "i", sim = "balanced", alpha =
 c(0.05, 0.95),[] 
[2638] [2639] [2640] [2641] [2642] [2643] [2644] [2645]) (./class-pkg.tex
[2646]
Chapter 19.
[2647] [2648] [2649] [2650] [2651] [2652] [2653] [2654] [2655] [2656] [2657]
[2658] [2659] [2660]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1006--1006
 []    \T1/pcr/m/n/9 alpha = list(seq(0.05, 0, length.out = 1e4), seq(0.02, 0, 
length.out = 1e5)),[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1007--1007
 []    \T1/pcr/m/n/9 radii = list(seq(8, 1, length.out = 1e4), seq(4, 1, length
.out = 1e5)))[] 
[2661] [2662]) (./cluster-pkg.tex
Chapter 20.
[2663] [2664] [2665]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 253--253
 []  \T1/pcr/m/n/9 all.equal(a.wgt [iC], agnes(d.vr, method="flexible", par.met
hod = 0.5)[iC])   ,[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 254--254
 []  \T1/pcr/m/n/9 all.equal(a.sing[iC], agnes(d.vr, method="flex", par.method=
 c(.5,.5,0, -.5))[iC]),[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 255--255
 []  \T1/pcr/m/n/9 all.equal(a.comp[iC], agnes(d.vr, method="flex", par.method=
 c(.5,.5,0, +.5))[iC]))[] 
[2666] [2667]
Underfull \vbox (badness 10000) has occurred while \output is active [2668]
[2669]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 519--519
 []           \T1/pcr/m/n/10 col = c(2, 0), border = 0, axes = TRUE, frame.plot
 = axes,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 523--523
 []           \T1/pcr/m/n/10 yaxRight = fromLeft, y.mar = 2.4 + max.strlen/2.5,
 ...)[] 
[2670] [2671]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 638--638
 []      \T1/pcr/m/n/10 keep.data = medoids.x, rngR = FALSE, pamLike = FALSE, c
orrect.d = TRUE)[] 
[2672] [2673] [2674]
Underfull \hbox (badness 2941) in paragraph at lines 792--795
[][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en
ces; [][][]\T1/pcr/m/n/10 clara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 pam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\
T1/ptm/m/n/10 ,
[2675]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 835--835
 []\T1/pcr/m/n/9 ## those that are not always in same cluster (5 out of 3000 fo
r this seed):[] 
Underfull \hbox (badness 10000) in paragraph at lines 882--884
[]\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p
le, see
[2676]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 947--947
 []     \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code
=3), ...)[] 
[2677]
Underfull \hbox (badness 4872) in paragraph at lines 992--994
[]\T1/ptm/m/n/10 simply cor-re-sponds to the global max-i-mum, i.e., is
Underfull \hbox (badness 1342) in paragraph at lines 1006--1010
[]\T1/ptm/m/n/10 This, the de-fault, has been pro-posed by Mar-tin Maech-ler in
 2012,
[2678]
Underfull \hbox (badness 2503) in paragraph at lines 1092--1096
[]\T1/ptm/m/n/10 Per Broberg (2006). SAGx: Sta-tis-ti-cal Anal-y-sis of the Gen
eChip. R pack-age ver-
[2679]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1118--1118
 []        \T1/pcr/m/n/9 sapply(mets, function(M) maxSE(fk, sk, method = M, SE.
factor = SEf)))[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1135--1135
 []\T1/pcr/m/n/9 ## You can manually set it before running this :    doExtras <
- TRUE  # or  FALSE[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2680]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1173--1173
 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap(<iid_rnorm_p=3>)  ==> k = 1  clust
er is optimal")[] 
Underfull \hbox (badness 4144) in paragraph at lines 1205--1209
[]\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1
/pcr/m/n/10 diss []\T1/ptm/m/n/10 nor a []\T1/pcr/m/n/10 data []\T1/ptm/m/n/10 
com-po-nent, e.g., for
[2681]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1281--1281
 []          \T1/pcr/m/n/10 col.clus = if(color) c(2, 4, 6, 3) else 5, cex = 1,
 cex.txt = cex,[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 1287--1287
 []             \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin
t variability."),[] 
[2682] [2683] [2684]
Underfull \hbox (badness 10000) in paragraph at lines 1474--1477
Underfull \hbox (badness 10000) in paragraph at lines 1488--1492
[][][]\T1/pcr/m/n/10 princomp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cmds
cale[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 daisy[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cov.mve[][][
][]\T1/ptm/m/n/10 ,
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1512--1512
 []\T1/pcr/m/n/9 clusplot(pamv, col.p = votes.clus, labels = 4)# color points a
nd label ellipses[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1522--1522
 []  \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i
dent. only points[] 
[2685]
Underfull \hbox (badness 5741) in paragraph at lines 1562--1565
[]\T1/pcr/m/n/10 coefHier() []\T1/ptm/m/n/10 di-rectly in-ter-faces to the un-d
er-ly-ing C code, and ``proves'' that \T1/ptm/m/it/10 only
[2686]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1631--1631
 []      \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa
rnType,[] 
[2687]
Underfull \hbox (badness 1552) in paragraph at lines 1680--1682
[]\T1/ptm/b/n/10 A\T1/ptm/m/n/10 symmetric bi-nary vari-able, aka []\T1/pcr/m/n
/10 "A" []\T1/ptm/m/n/10 in re-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , se
e
Underfull \hbox (badness 1629) in paragraph at lines 1694--1698
[]\T1/ptm/b/n/10 I\T1/ptm/m/n/10 nterval scaled -- the \T1/ptm/b/n/10 de-fault 
\T1/ptm/m/n/10 for all nu-meric
Underfull \hbox (badness 3746) in paragraph at lines 1694--1698
\T1/ptm/m/n/10 (incl []\T1/pcr/m/n/10 integer[]\T1/ptm/m/n/10 ) columns of []\T
1/pcr/m/n/10 x[]\T1/ptm/m/n/10 , aka []\T1/pcr/m/n/10 "I" []\T1/ptm/m/n/10 in r
e-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , see
[2688]
Underfull \hbox (badness 1540) in paragraph at lines 1769--1777
\T1/ptm/m/n/10 In other words, $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 is a weigh
ted mean of $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 with weights $\OML/cmm/m/it/1
0 w[]^^N[]$\T1/ptm/m/n/10 , where $\OML/cmm/m/it/10 w[]$[]\T1/pcr/m/n/10 =
[2689]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1856--1856
 []\T1/pcr/m/n/9 ## Example 2 in reference, extended  ---  different ways of "m
ixed" / "gower":[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1860--1860
 []\T1/pcr/m/n/9 summary(d0    <- daisy(flower))  # -> the first 3 {0,1} treate
d as *N*ominal[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 1861--1861
 []\T1/pcr/m/n/9 summary(dS123 <- daisy(flower,  type = list(symm = 1:3))) # fi
rst 3 treated as *S*ymmetric[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1862--1862
 []\T1/pcr/m/n/9 stopifnot(dS123 == d0) # i.e.,  *S*ymmetric <==> *N*ominal {fo
r 2-level factor}[] 
Overfull \hbox (106.98032pt too wide) in paragraph at lines 1866--1866
 []\T1/pcr/m/n/9 summary(dA123 <- daisy(flowerN)) # .. all 3 logicals treated *
A*symmetric binary (w/ warning)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1868--1868
 []\T1/pcr/m/n/9 summary(dA13 <- daisy(flower, type = list(asymm = c(1, 3), ord
ratio = 7)))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1876--1876
 []\T1/pcr/m/n/9 summary(dN <- daisy(Nflow)) # w/ warning: treated binary .. 1:
3 as interval[] 
Overfull \hbox (117.7803pt too wide) in paragraph at lines 1877--1877
 []\T1/pcr/m/n/9 ## Still, using Euclidean/Manhattan distance for {0-1} *is* id
entical to treating them as "N" :[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 1893--1893
 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st
and = FALSE, 
[2690] [2691] [2692] [2693] [2694]
Underfull \hbox (badness 10000) in paragraph at lines 2212--2215
Underfull \hbox (badness 3179) in paragraph at lines 2223--2229
[][][]\T1/pcr/m/n/10 predict.ellipsoid[][][] []\T1/ptm/m/n/10 which is also the
 [][][]\T1/pcr/m/n/10 predict[][][] []\T1/ptm/m/n/10 method for []\T1/pcr/m/n/1
0 ellipsoid []\T1/ptm/m/n/10 ob-jects.
[2695] [2696]
Underfull \hbox (badness 10000) in paragraph at lines 2380--2383
[][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en
ces; [][][]\T1/pcr/m/n/10 fanny.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 partition.object[][][][]\T1/ptm/m/n/10 ,
[2697]
Underfull \hbox (badness 1292) in paragraph at lines 2448--2451
[]\T1/ptm/m/n/10 named vec-tor with []\T1/pcr/m/n/10 iterations[]\T1/ptm/m/n/10
 , the num-ber of it-er-a-tions needed and
[2698]
Underfull \hbox (badness 6675) in paragraph at lines 2457--2459
[]\T1/ptm/m/n/10 list with sil-hou-ette in-for-ma-tion of the near-est crisp cl
us-ter-ing, see
Underfull \hbox (badness 10000) in paragraph at lines 2480--2483
[][][]\T1/pcr/m/n/10 fanny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.f
anny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dissimilarity.object[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 ,
[2699]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2555--2555
 []                           \T1/pcr/m/n/9 "4" = "red", "5" = "blue")[levels(f
lowerN$color)][] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 2556--2556
 []\T1/pcr/m/n/9 levels(flowerN$soil)  <- c("1" = "dry", "2" = "normal", "3" = 
"wet")[levels(flowerN$soil)][] 
[2700]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 2619--2619
 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES 
= FALSE, ...) 
[2701]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 2666--2666
 []  \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k
 <= k, table(cl.k) >= 2)[] 
[2702]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2771--2771
 []\T1/pcr/m/n/9 ## One place to see if/how error messages are *translated* (to
 \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 de\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 / \TS1/pcr/m/n/
9 '\T1/pcr/m/n/9 pl\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ):[] 
[2703]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 2850--2850
 []    \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5"
, "faster"),[] 
[2704] [2705] [2706]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3076--3076
 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro
und (1, 16):[] 
[2707] [2708]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3179--3179
 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co
l.axis = "red")[] 
[2709] [2710] [2711]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 3373--3373
 []           \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x
$ac, digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3374--3374
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2712]
Underfull \hbox (badness 10000) in paragraph at lines 3441--3444
[]\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m
/n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <-
[2713]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 3491--3491
 []           \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc,
 digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3492--3492
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2714] [2715] [2716]
Underfull \hbox (badness 10000) in paragraph at lines 3677--3680
[]\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1
/pcr/m/n/10 diss []\T1/ptm/m/n/10 com-po-nent as for [][][]\T1/pcr/m/n/10 pam[]
[][](*,
Underfull \hbox (badness 1448) in paragraph at lines 3677--3680
\T1/pcr/m/n/10 keep.diss=FALSE)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dist []\T1/p
tm/m/n/10 must be the dis-sim-i-lar-ity if a clus-plot is
[2717]
Underfull \hbox (badness 10000) in paragraph at lines 3740--3745
[][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 clusplot.partition[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 clusplot.de
fault[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 ,
[2718]
Underfull \hbox (badness 1748) in paragraph at lines 3802--3807
\T1/ptm/m/n/10 dis-patches to [][][]\T1/pcr/m/n/10 plot.hclust[][][](..)[]\T1/p
tm/m/n/10 . If more flex-i-ble plots are needed, con-sider []\T1/pcr/m/n/10 xx 
<-
Underfull \hbox (badness 6268) in paragraph at lines 3814--3817
[][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 agnes.o
bject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana[][][][]\T1/ptm/m/n/10 
, [][][]\T1/pcr/m/n/10 diana.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/1
0 hclust[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10
 , [][][]\T1/pcr/m/n/10 plot.agnes[][][][]\T1/ptm/m/n/10 ,
[2719]
Underfull \hbox (badness 10000) in paragraph at lines 3875--3877
[]\T1/ptm/m/n/10 Available as `\T1/pcr/m/n/10 pluton.dat\T1/ptm/m/n/10 ' from t
he archive of the Uni-ver-sity of Antwer-pen,
[2720] [2721]
Underfull \hbox (badness 10000) in paragraph at lines 3994--3997
[][][]\T1/pcr/m/n/10 summary.agnes[][][] []\T1/ptm/m/n/10 pro-duc-ing more out-
put; [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ag
nes.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/
n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 4025--4028
[][][]\T1/pcr/m/n/10 summary.clara[][][] []\T1/ptm/m/n/10 pro-duc-ing more out-
put; [][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cl
ara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/
n/10 ,
[2722]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 4078--4078
 []      \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right =
 TRUE, ...)[] 
Underfull \hbox (badness 2035) in paragraph at lines 4089--4091
[]\T1/ptm/m/n/10 a []\T1/pcr/m/n/10 dissimilarity []\T1/ptm/m/n/10 ob-ject or a
 []\T1/pcr/m/n/10 summary.dissimilarity []\T1/ptm/m/n/10 one for
[2723] [2724] [2725] [2726]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 4282--4282
 []     \T1/pcr/m/n/10 main = NULL, sub = NULL, xlab = expression("Silhouette w
idth "* s[i]),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 4284--4284
 []     \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat
 = TRUE, ...)[] 
[2727] [2728]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 4426--4426
 []\T1/pcr/m/n/9 plot(si, col = c("red", "green", "blue", "purple"))# with clus
ter-wise coloring[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4435--4435
 []   \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k),
 do.n.k=FALSE)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4437--4437
 []      \T1/pcr/m/n/9 outer = TRUE, font = par("font.main"), cex = par("cex.ma
in")); frame()[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 4440--4440
 []\T1/pcr/m/n/9 c6 <- c("tomato", "forest green", "dark blue", "purple2", "gol
denrod4", "gray20")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4442--4442
 []   \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k),
 do.n.k=FALSE,[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 4449--4449
 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro
wnames == indices[] 
[2729] [2730] [2731] [2732] [2733] [2734] [2735]
Underfull \hbox (badness 10000) in paragraph at lines 4820--4826
[]\T1/ptm/m/n/10 Our ver-sion of the []\T1/pcr/m/n/10 xclara []\T1/ptm/m/n/10 i
s slightly more rounded than the one from
Underfull \hbox (badness 10000) in paragraph at lines 4836--4838
[]\T1/ptm/m/n/10 Sample data set ac-com-pa-ny-ing the ref-er-ence be-low (file 
`\T1/pcr/m/n/10 xclara.dat\T1/ptm/m/n/10 ' in side
Overfull \hbox (52.98038pt too wide) in paragraph at lines 4849--4849
 []\T1/pcr/m/n/9 ## Visualization: Assuming groups are defined as {1:1000}, {10
01:2000}, {2001:3000} 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 4851--4851
 []\T1/pcr/m/n/9 p.ID <- c(78, 1411, 2535) ## PAM\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 
s medoid indices  == pam(xclara, 3)$id.med[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4861--4861
 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7  clear "outlier"s  or "wrong group" o
bservations:[] 
[2736]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4865--4865
 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? -
- Robust range:[] 
[2737]) (./codetools-pkg.tex [2738]
Chapter 21.
Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16
 []           \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch
 = FALSE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17
 []           \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = 
!all,[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 18--18
 []           \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress
Undefined,[] 
[2739]
Underfull \hbox (badness 10000) in paragraph at lines 65--70
[]\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage
Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply
[2740]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 118--118
 []\T1/pcr/m/n/10 makeConstantFolder(..., leaf, handler, call, exit, isLocal, f
oldable,[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 121--121
 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e
nterInternal,[] 
[2741] [2742] [2743]) (./foreign-pkg.tex [2744]
Chapter 22.
Underfull \hbox (badness 10000) in paragraph at lines 33--37
[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
Underfull \hbox (badness 10000) in paragraph at lines 33--37
\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\T1/p
cr/m/n/10 https : / / support .
Underfull \hbox (badness 10000) in paragraph at lines 33--37
\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
Overfull \hbox (74.28088pt too wide) in paragraph at lines 33--37
\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2745]
Underfull \hbox (badness 1231) in paragraph at lines 67--70
[]\T1/ptm/m/n/10 a char-ac-ter string with the name of the ARFF file to read fr
om, or a
[2746] [2747]
Underfull \hbox (badness 3601) in paragraph at lines 234--242
[]\T1/ptm/m/n/10 A data frame with at-tributes. These will in-clude []\T1/pcr/m
/n/10 "datalabel"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "time.stamp"[]\T1/ptm/m/n/
10 ,
[2748]
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 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates =
 FALSE, 
[2749] [2750] [2751]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 458--458
 []          \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t
o.data.frame,[] 
[2752]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 459--459
 []          \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen
d", "no"),[] 
Underfull \hbox (badness 2846) in paragraph at lines 502--511
[]\T1/ptm/m/n/10 character: what to do with du-pli-cated value la-bels for dif-
fer-ent lev-
Underfull \hbox (badness 3746) in paragraph at lines 502--511
\T1/ptm/m/n/10 els. For []\T1/pcr/m/n/10 "append" []\T1/ptm/m/n/10 (the de-faul
t), the first orig-i-nal value la-bel is
Underfull \hbox (badness 2269) in paragraph at lines 502--511
\T1/ptm/m/n/10 kept while fur-ther du-pli-cated la-bels are re-named to []\T1/p
cr/m/n/10 paste0(label,
Underfull \hbox (badness 10000) in paragraph at lines 512--515
[]\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with
 du-
Underfull \hbox (badness 10000) in paragraph at lines 512--515
\T1/ptm/m/n/10 pli-cated value la-bels in SPSS (de-fault []\T1/pcr/m/n/10 "_dup
licated_"[]\T1/ptm/m/n/10 ) if
[2753]
Underfull \hbox (badness 10000) in paragraph at lines 546--554
[]\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / 
en-[]us / windows / win32 / intl /
Underfull \hbox (badness 7613) in paragraph at lines 564--570
[]\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute
[2754]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 619--619
 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg
ument settings.[] 
Overfull \hbox (112.38031pt too wide) in paragraph at lines 620--620
 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to 
R factor labels) are uncomplete,[] 
[2755]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 653--653
 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ
ate variables[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 657--657
 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt
h=w), "\n"))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 664--664
 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, 
collapse="")[] 
[2756] [2757]
Underfull \hbox (badness 10000) in paragraph at lines 808--809
Overfull \hbox (4.38043pt too wide) in paragraph at lines 818--818
 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f
oreign")[1])[] 
[2758]
Underfull \hbox (badness 10000) in paragraph at lines 865--869
[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
Underfull \hbox (badness 10000) in paragraph at lines 865--869
\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p
cr/m/n/10 https : / / support .
Underfull \hbox (badness 10000) in paragraph at lines 865--869
\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
Overfull \hbox (74.28088pt too wide) in paragraph at lines 865--869
\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2759]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 896--896
 []  \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G
lobalEnv) 
[2760]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 960--960
 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute
(x))) 
[2761] [2762]
Underfull \hbox (badness 10000) in paragraph at lines 1072--1073
[][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase 
/ format / data _ types .
Overfull \hbox (24.78088pt too wide) in paragraph at lines 1108--1108
 []          \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", 
"codes"))[] 
[2763] [2764]
Underfull \hbox (badness 10000) in paragraph at lines 1265--1271
[]\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig
n:::writeForeignStata[]\T1/ptm/m/n/10 ,
[2765]
Underfull \hbox (badness 2088) in paragraph at lines 1291--1294
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid
e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET
[2766]) (./lattice-pkg.tex
Chapter 23.
[2767]
Underfull \hbox (badness 2073) in paragraph at lines 114--118
\T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [
][]$\T1/pcr/m/n/10 http : / / web . archive . org /
Underfull \hbox (badness 10000) in paragraph at lines 114--118
\T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / 
ms / departments / sia /
[2768] [2769]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 288--288
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 292--292
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.xyplot"),[] 
[2770]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 303--303
 []        \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul
t.dotplot"),[] 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 313--313
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.barchart"),[] 
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 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.stripplot"),[] 
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 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2771]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 352--352
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.bwplot"),[] 
[2772] [2773] [2774]
Underfull \hbox (badness 1221) in paragraph at lines 655--658
[]\T1/ptm/m/n/10 A log-i-cal, or a list con-tain-ing com-po-nents to be used as
 ar-gu-ments to
[2775] [2776] [2777] [2778]
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[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the un-used lev-els of 
fac-tors will be
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\T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a 
use-ful lay-out.
[2779] [2780]
Underfull \hbox (badness 1661) in paragraph at lines 1101--1107
[]\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 sho
uld be num-bers be-tween 0 and 1, giv-ing co-or-di-nates
[2781]
Underfull \hbox (badness 1097) in paragraph at lines 1227--1229
[]\T1/ptm/m/n/10 Logical flag, whether leg-end should have a
Underfull \hbox (badness 1917) in paragraph at lines 1241--1242
[]\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to
[2782] [2783] [2784]
Underfull \hbox (badness 1540) in paragraph at lines 1476--1482
[]\T1/ptm/m/n/10 A list con-tain-ing pos-si-ble ar-gu-ments to [][][]\T1/pcr/m/
n/10 plot.trellis[][][][]\T1/ptm/m/n/10 ,
[2785]
Underfull \hbox (badness 10000) in paragraph at lines 1563--1580
[][][]\T1/pcr/m/n/10 panel.dotplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 panel.stripplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.superpose[]
[][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.loess[][][][]\T1/ptm/m/n/10 ,
[2786]
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 []                  \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar
dSprays$rowpos))),[] 
[2788]
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[]\T1/ptm/m/n/10 additional ar-gu-ments passed to [][][]\T1/pcr/m/n/10 xyplot[]
[][][]\T1/ptm/m/n/10 , which may pass them on to
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[]\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p
assed to
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[]\T1/ptm/m/n/10 style set-tings be-yond the stan-dard []\T1/pcr/m/n/10 col[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1
/ptm/m/n/10 , etc; see
[2789]
Underfull \hbox (badness 10000) in paragraph at lines 1804--1806
[]\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix
 An-drews
[2790] [2791] [2792]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2045--2045
 []            \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto
.key,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2058--2058
 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl
ot"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2793]
Underfull \hbox (badness 10000) in paragraph at lines 2137--2140
[]\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 breaks []\T1/ptm/m/n/10 is un-spec-i-fie
d, the value of
Underfull \hbox (badness 1320) in paragraph at lines 2137--2140
[]\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs
t checked. If
[2794] [2795] [2796]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 2342--2342
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 2346--2346
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.qqmath"),[] 
[2797] [2798] [2799] [2800] [2801]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 2702--2702
 []          \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev
elplot.raster")[] 
[2802]
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 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl
ot"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2803]
Underfull \hbox (badness 2913) in paragraph at lines 2813--2818
[]\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/
pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix.
Underfull \hbox (badness 3058) in paragraph at lines 2813--2818
[]\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values
 []\T1/ptm/m/n/10 must have the same lengths as
[2804] [2805]
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[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the col-orkey should be
Underfull \hbox (badness 7576) in paragraph at lines 2941--2945
\T1/ptm/m/n/10 ren-dered as a raster im-age us-ing [][][]\T1/pcr/m/n/10 grid.ra
ster[][][][]\T1/ptm/m/n/10 . See also
Underfull \hbox (badness 10000) in paragraph at lines 2947--2949
[]\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] 
[]\T1/ptm/m/n/10 when
Underfull \hbox (badness 7256) in paragraph at lines 2984--2984
[]\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gr
oups[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1609) in paragraph at lines 2997--3003
[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether raster rep-re-sen-ta-ti
ons should be used,
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\T1/ptm/m/n/10 both for the false color im-age and the color key (if present). 
Ef-
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\T1/ptm/m/n/10 fec-tively, set-ting this to []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n
/10 changes the de-fault panel func-tion from
Underfull \hbox (badness 2486) in paragraph at lines 3021--3025
[]\T1/ptm/m/n/10 Other use-ful ar-gu-ments are men-tioned in the help page for 
the de-fault panel func-tion
[2806] [2807]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3126--3126
 []      \T1/pcr/m/n/10 xlim = if (is.factor(x)) levels(x) else range(x, finite
 = TRUE),[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3127--3127
 []      \T1/pcr/m/n/10 ylim = if (is.factor(y)) levels(y) else range(y, finite
 = TRUE),[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3128--3128
 []      \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite
 = TRUE),[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3139--3139
 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
cloud"),[] 
[2808]
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 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.wireframe"),[] 
[2809]
Underfull \hbox (badness 2913) in paragraph at lines 3219--3224
[]\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/
pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix.
Underfull \hbox (badness 3058) in paragraph at lines 3219--3224
[]\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values
 []\T1/ptm/m/n/10 must have the same lengths as
Underfull \hbox (badness 2418) in paragraph at lines 3225--3225
[]\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepan
el[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 
groups[]\T1/ptm/m/n/10 ,
[2810] [2811] [2812]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.parallel}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.3506 \aliasA{parallel}{B\_08\_splom}{parallel}
                                                 [2813]
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 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
splom"),[] 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 3571--3571
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.parallel"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2814]
[2815] [2816] [2817] [2818]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3906--3906
 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt(
var(x))) 
[2819] [2820]
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[]\T1/ptm/m/n/10 A pos-si-ble use of this ar-gu-ment is to change the de-fault 
set-tings by
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\T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa
ded) set to
[2821]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 4089--4089
 []               \T1/pcr/m/n/10 symbol = palette.colors(palette = "Okabe-Ito")
[c(6, 2, 4, 7, 3, 5, 8)],[] 
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 []               \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re
v = TRUE),[] 
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 []             \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = "
black",[] 
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 []             \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra
y70", 7),[] 
[2822] [2823]
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 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict 
= FALSE) 
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[]\T1/ptm/m/n/10 A char-ac-ter string giv-ing the name of a com-po-nent. If un-
spec-i-fied in
[2824]
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[]\T1/ptm/m/n/10 A log-i-cal flag, in-di-cat-ing whether a warn-ing should be i
s-sued when
Underfull \hbox (badness 1728) in paragraph at lines 4295--4299
[]\T1/pcr/m/n/10 theme[]\T1/ptm/m/n/10 ). These are used to mod-ify the cur-ren
t set-tings (ob-tained by
[2825]
Underfull \hbox (badness 5161) in paragraph at lines 4360--4364
[]\T1/ptm/m/n/10 The ac-tual list of the com-po-nents in []\T1/pcr/m/n/10 trell
is.settings []\T1/ptm/m/n/10 has not been fi-nal-ized,
Underfull \hbox (badness 4913) in paragraph at lines 4360--4364
\T1/ptm/m/n/10 so I'm not at-tempt-ing to list them here. The cur-rent value ca
n be ob-tained by
[2826]
Underfull \hbox (badness 1067) in paragraph at lines 4478--4488
[]\T1/ptm/m/n/10 A color spec-i-fi-ca-tion. []\T1/pcr/m/n/10 col []\T1/ptm/m/n/
10 is used for com-po-nents []\T1/pcr/m/n/10 "plot.symbol"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "plot.line"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "plot.polygon"[
]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1735) in paragraph at lines 4478--4488
[]\T1/pcr/m/n/10 "superpose.line"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "super
pose.polygon"[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 col.points
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[]\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , but is used 
only for []\T1/pcr/m/n/10 "plot.symbol" []\T1/ptm/m/n/10 and
Underfull \hbox (badness 5231) in paragraph at lines 4478--4488
[]\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 . Sim-i-larly, []\T1/pcr/m/
n/10 col.line []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col []\T1/ptm/m/n/10
 for
[2827]
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[]\T1/ptm/m/n/10 fill color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 pl
ot.symbol[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 plot.polygon[]\T1/ptm/m/n/10 ,
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[]\T1/ptm/m/n/10 border color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 
plot.polygon []\T1/ptm/m/n/10 and
[2828]
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[]\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 aspect[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 between[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 grid[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 skip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 ,
[2829] [2830] [2831] [2832]
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 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab
 = "Height")[] 
[2833] [2834]
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[]\T1/pcr/m/n/10 main[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 page[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 par.strip.text[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 skip
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yscale.co
mponents[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 axis[]\T1/ptm/m/n/10 , []\T1/pcr/m/
n/10 par.settings[]\T1/ptm/m/n/10 ,
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[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 trellis[]\T1/ptm/m/n/10 ,
 by de-fault plot-ted by []\T1/pcr/m/n/10 print.trellis[]\T1/ptm/m/n/10 .
[2836] [2837]
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[]\T1/pcr/m/n/10 plot.shingle []\T1/ptm/m/n/10 dis-plays the ranges of shin-gle
s via rect-an-gles. []\T1/pcr/m/n/10 print.shingle []\T1/ptm/m/n/10 and
[2838] [2839] [2840] [2841] [2842]
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[][][]\T1/pcr/m/n/10 Lattice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 draw.
key[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 trellis.par.get[][][][]\T1/ptm
/m/n/10 , and [][][]\T1/pcr/m/n/10 xyplot[][][][]\T1/ptm/m/n/10 , specif-i-call
y the en-try for
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 []              \T1/pcr/m/n/10 bg = trellis.par.get("strip.background")$col[wh
ich.given],[] 
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 []              \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which
.given],[] 
[2843]
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[]\T1/ptm/m/n/10 logical, spec-i-fy-ing whether the la-bels etc should be hor-i
-zon-tal.
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[]\T1/pcr/m/n/10 horizontal=FALSE []\T1/ptm/m/n/10 is use-ful for strips on the
 left of pan-els us-ing
[2844]
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[]\T1/pcr/m/n/10 strip.default []\T1/ptm/m/n/10 is called for its side-effect, 
which is to draw a strip ap-pro-pri-ate for
[2845] [2846]
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 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la
bels,[] 
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 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose
"), ...)[] 
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 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos
e"), ...)[] 
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 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location"
, "toplevel",[] 
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 []                        \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig
ht", "page"),[] 
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 []               \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in
side"),[] 
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 []                 \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi
ch.given",[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5891--5891
 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 5892--5892
 []                 \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi
ch.panel",[] 
[2847]
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 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
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 []                 \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co
lumn",[] 
Underfull \hbox (badness 10000) in paragraph at lines 5910--5912
[]\T1/ptm/m/n/10 variables defin-ing the con-tents of the panel. In the case of
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[]\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point.
 De-faults to
[2848]
Underfull \hbox (badness 2538) in paragraph at lines 6045--6049
\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 trellis.focus[]\T1/ptm/m/n/10 , the de-faul
t is []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 in in-ter-ac-tive mode, and
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 panel.identify.qqmath[]\T1/ptm/m/n/10 , e
x-tra pa-ram-e-ters are passed on to
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[]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 trellis.switchFocus[]\T1/ptm/m/n/10 , the
se are used (in com-bi-na-tion with
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[][][]\T1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Latt
ice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.trellis[][][][]\T1/ptm/m
/n/10 , [][][]\T1/pcr/m/n/10 trellis.currentLayout[][][][]\T1/ptm/m/n/10 ,
[2851]
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[2853]
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[]\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li
s pa-ram-e-
[2854] [2855]
Underfull \hbox (badness 3601) in paragraph at lines 6472--6477
[]\T1/ptm/m/n/10 Creates Box and Whisker plot of []\T1/pcr/m/n/10 x []\T1/ptm/m
/n/10 for ev-ery level of []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 (or the other way
 round
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\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 horizontal=FALSE[]\T1/ptm/m/n/10 ). By de-fa
ult, the ac-tual box-plot statis-tics are cal-cu-lated us-ing
[2856]
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 []             \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co
lors")$palette,[] 
[2857] [2858] [2859]
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[]\T1/ptm/m/n/10 All three num-bers should be be-tween 0 and 1. The
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[]\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i
n
[2860]
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 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Inferno"),[] 
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 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Dark Mint"),[] 
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 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Harmonic"),[] 
[2861] [2862] [2863] [2864] [2865]
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[]\T1/pcr/m/n/10 panel.levelplot.raster []\T1/ptm/m/n/10 is an al-ter-na-tive p
anel func-tion that uses the raster draw-
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\T1/ptm/m/n/10 can only ren-der data on an eq-ui-s-paced grid), but can be more
 ef-fi-cient. When us-ing
[2866] [2867]
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 []                 \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = 
NULL,[] 
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[]\T1/ptm/m/n/10 The panel func-tion used for the di-ag-o-nals. See ar-gu-ments
 to
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[]\T1/pcr/m/n/10 diag.panel.splom []\T1/ptm/m/n/10 to know what ar-gu-ments thi
s func-tion is passed
[2868] [2869]
Underfull \hbox (badness 10000) in paragraph at lines 7435--7438
\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 diag.panel []\T1/ptm/m/n/10 from []\T1/pcr/
m/n/10 panel.pairs[]\T1/ptm/m/n/10 . Cur-rently ig-nored by
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 []              \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow(
11, start=.12, end=.5)[i+j-1])[] 
[2870] [2871]
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[]\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu
-ally passed on to
[2872]
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 []                  \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta
ils.n = 50))[] 
[2873] [2874]
Underfull \hbox (badness 1939) in paragraph at lines 7836--7844
[]\T1/pcr/m/n/10 "lm" []\T1/ptm/m/n/10 adds a lin-ear re-gres-sion line (same a
s [][][]\T1/pcr/m/n/10 panel.lmline[][][][]\T1/ptm/m/n/10 , ex-cept
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\T1/ptm/m/n/10 for de-fault graph-i-cal pa-ram-e-ters). []\T1/pcr/m/n/10 "loess
" []\T1/ptm/m/n/10 adds a loess fit (same as
[2875]
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[]\T1/ptm/m/n/10 Most gen-er-ally, []\T1/pcr/m/n/10 grid []\T1/ptm/m/n/10 can b
e a list of ar-gu-ments to be sup-plied to
[2876]
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 []       \T1/pcr/m/n/9 ylab = list(c("horizontal=TRUE", "horizontal=FALSE"), y
 = c(1/6, 4/6)),[] 
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 []       \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d
raw = FALSE),[] 
[2877]
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 []        \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam
e.type)[] 
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 []        \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ide
ntifier, name.type)[] 
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[]\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 alpha[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1/ptm/m/n/10 , 
[]\T1/pcr/m/n/10 fill[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 , 
[]\T1/pcr/m/n/10 cex[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lineheight[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 font[]\T1/ptm/m/n/10 ,
[2879]
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 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.rect, col = 4, alpha = 0.5, wid
th = 0.1, height = 0.1)[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.polygon, col = 4, alpha = 0.5, 
rule = "evenodd")[] 
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 []\T1/pcr/m/n/9 ## Example adapted from https://journal.r-project.org/articles
/RJ-2012-017/[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polygon,  rule = "none",
 col = "grey")[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "windin
g", col = "grey")[] 
[2880]
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "evenod
d", col = "grey")[] 
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 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden
tifier = "grid")[] 
[2881]
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[]\T1/ptm/m/n/10 A log-i-cal flag de-ter-min-ing whether the de-fault graph-i-c
al pa-ram-e-ters for
[2882] [2883]
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 []           \T1/pcr/m/n/9 panel.superpose(x, y, ..., panel.groups = panel.ave
rage, grid = FALSE,[] 
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 []                                \T1/pcr/m/n/9 args = list(mean = mean(x), sd
 = sd(x)), ...)[] 
[2884] [2885] [2886] [2887] [2888] [2889]
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[]\T1/ptm/m/n/10 Extra ar-gu-ments. Passed down to []\T1/pcr/m/n/10 panel.super
pose
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[]\T1/ptm/m/n/10 from []\T1/pcr/m/n/10 panel.superpose.2[]\T1/ptm/m/n/10 , and 
to []\T1/pcr/m/n/10 panel.groups []\T1/ptm/m/n/10 from
[2890] [2891]
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 []\T1/pcr/m/n/10 prepanel.default.bwplot(x, y, horizontal, nlevels, origin, st
ack, ...)[] 
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 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin
t, ...)[] 
[2892]
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 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr
ipts, ...)[] 
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[]\T1/ptm/m/n/10 details of his-togram cal-cu-la-tions. []\T1/pcr/m/n/10 type [
]\T1/ptm/m/n/10 has a dif-fer-ent mean-ing in
[2893]
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[]\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti
es. If used with
[2894] [2895]
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[]\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr
ibed in
[2896]
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 []                \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b
ottom$labels$labels)[] 
[2897] [2898]
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 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su
nspot.year)),[] 
[2899]
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\T1/pcr/m/n/10 condition []\T1/ptm/m/n/10 for 2-D, and []\T1/pcr/m/n/10 left, r
ight.x, right.y, left.name, right.x.name,
[2900] [2901] [2902] [2903] [2904] [2905] [2906]
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[]\T1/ptm/m/n/10 Factor with lev-els []\T1/pcr/m/n/10 "Svansota"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "No. 462"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Manchuria"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 475"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "Velvet"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Peatland"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "Glabron"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 4
57"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Wisconsin No. 38"[]\T1/ptm/m/n/10 ,
[2907] [2908] [2909]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.melanoma}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10249 \aliasA{melanoma}{H\_melanoma}{melanoma}
                                                 [2910] [2911] [2912]
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\T1/pcr/m/n/10 diseases[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Diabetes[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 Flu and pneumonia[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 He
art disease[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Lower
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 []        \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list(
columns = 2),[] 
[2913] [2914]) (./mgcv-pkg.tex
Chapter 24.
[2915] [2916]
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 []\T1/pcr/m/n/10 bam(formula,family=gaussian(),data=list(),weights=NULL,subset
=NULL, 
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 []    \T1/pcr/m/n/10 paraPen=NULL,chunk.size=10000,rho=0,AR.start=NULL,discret
e=FALSE,[] 
[2917]
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 []    \T1/pcr/m/n/10 coef=NULL,drop.unused.levels=TRUE,G=NULL,fit=TRUE,drop.in
tercept=NULL,[] 
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
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\T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known 
scale.
[2918] [2919] [2920] [2921]
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[][][]\T1/pcr/m/n/10 mgcv.parallel[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 ,
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[][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict.
gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10
 ,
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[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g
am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm
/m/n/10 ,
[2922]
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 []\T1/pcr/m/n/9 system.time(b2 <- bam(y ~ s(x0,bs=bs,k=k)+s(x1,bs=bs,k=k)+s(x2
,bs=bs,k=k)+[] 
[2923] [2924] [2925]
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[]\T1/ptm/m/n/10 The link func-tion: one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cloglog" 
[]\T1/ptm/m/n/10 and
[2926] [2927]
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[]\T1/ptm/m/n/10 The MKL BLAS is mut-lithreaded by de-fault. Un-der linux set-t
ing en-vi-ron-ment vari-able
[2928] [2929]
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[]\T1/ptm/m/n/10 Choosing the ba-sis di-men-sion, and check-ing the choice, whe
n us-ing pe-nal-ized re-gres-sion
[2930]
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[]\T1/ptm/m/n/10 Wood, S.N. (2017) Gen-er-al-ized Ad-di-tive Mod-els: An In-tro
-duc-tion with R (2nd edi-tion).
[2931]
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[2933] [2934] [2935] [2936] [2937] [2938] [2939]
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 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h + 2*b$family$data$
q^.5),col=2)[] 
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 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h - 2*b$family$data$
q^.5),col=2)[] 
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 []    \T1/pcr/m/n/9 plot(b$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor
e residuals",[] 
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 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor
+rx+obstruct[] 
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 []\T1/pcr/m/n/9 if (i==1) plot(bs$family$data$tr[ind],exp(-bs$family$data$h[in
d]),type="l",[] 
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 []      \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind])
,lwd=2,col=i)[] 
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 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights=
d,data=surv)[] 
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[2942]
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 []  \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid),
 initial = 0,[] 
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 []    \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][
nrow(um)] <- 1[] 
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 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter
polate to te[] 
[2944] [2945] [2946] [2947] [2948] [2949] [2950]
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 []\T1/pcr/m/n/9 bd <- bam(y~s(x0)+ s(x1) + s(x1,fac,bs="sz",k=5)+s(x2,k=20),di
screte=TRUE)[] 
[2951] [2952] [2953] [2954]
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 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str
ict=FALSE) 
[2955] [2956] [2957] [2958] [2959] [2960]
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 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset
=NULL,[] 
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[]\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n
/10 formula.gam[][][] []\T1/ptm/m/n/10 and also
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[2961]
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\T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known 
scale.
[2962] [2963] [2964]
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\T1/ptm/m/n/10 eral lin-ear func-tion-als of smooths, via the sum-ma-tion con-v
en-tion mech-a-nism de-scribed in
[2965] [2966]
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[][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
gamObject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 ,
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[][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict.
gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10
 ,
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[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g
am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm
/m/n/10 ,
[2967]
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 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1
e-07, 
[2972]
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 []            \T1/pcr/m/n/10 maxit = 200,mgcv.tol=1e-7,mgcv.half=15, trace = F
ALSE,[] 
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 []         \T1/pcr/m/n/10 mustart = NULL, offset = rep(0, nobs), U1 = diag(nco
l(x)),[] 
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 []         \T1/pcr/m/n/10 printWarn=TRUE,scoreType="REML",null.coef=rep(0,ncol
(x)),[] 
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 []         \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU
LL,...)[] 
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[]\T1/ptm/m/n/10 Random ef-fects can be added to []\T1/pcr/m/n/10 gam []\T1/ptm
/m/n/10 mod-els us-ing []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms (
see
[2986] [2987]
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 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat
,method="ML")[] 
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[2989] [2990]
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[]\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix
ed penalty, if
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 []  \T1/pcr/m/n/9 mod <- gam(y~s(a,bs="re")+s(b,bs="re")+s(a,b,bs="re")+s(x0,i
d=1)+s(x1,id=1)+[] 
[2998] [2999] [3000]
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 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, 
d1b = 0, 
[3001] [3002]
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[3003]
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[]\T1/ptm/m/n/10 In the event of []\T1/pcr/m/n/10 lme []\T1/ptm/m/n/10 con-ver-
gence fail-ures, con-sider mod-i-fy-ing
[3004] [3005]
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[][][]\T1/pcr/m/n/10 magic[][][] []\T1/ptm/m/n/10 for an al-ter-na-tive for cor
-re-lated data, [][][]\T1/pcr/m/n/10 te[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gam[][][][]\T1/ptm
/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 ,
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[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 n
egbin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 vis.gam[][][][]\T1/ptm/m/n/1
0 ,[][][]\T1/pcr/m/n/10 pdTens[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gamm4 [
]\T1/ptm/m/n/10 ( [][]$\T1/pcr/m/n/10 https : / / cran . r-[]project .
[3006]
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[3008] [3009] [3010]
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[]\T1/ptm/m/n/10 If `outer' it-er-a-tion has been used to fit the model (see []
[][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 ar-gu-ment
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[]\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic-
tion, used by
[3011] [3012] [3013] [3014] [3015] [3016] [3017] [3018] [3019]
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 []\T1/pcr/m/n/10 ginla(G,A=NULL,nk=16,nb=100,J=1,interactive=FALSE,integ=0,app
rox=0) 
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[]\T1/ptm/m/n/10 A pre-fit gam ob-ject, as pro-duced by []\T1/pcr/m/n/10 gam(..
.,fit=FALSE) []\T1/ptm/m/n/10 or
[3020] [3021]
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 []  \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d
ata. A simple[] 
[3022]
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 []      \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j]
,lty=lty[j])[] 
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 []  \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo
r comparison[] 
[3023] [3024] [3025]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6355--6355
 []       \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r
norm(100)*.4[] 
[3026] [3027] [3028] [3029] [3030]
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 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n
a.action, 
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 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona
lize=FALSE)[] 
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[3031] [3032] [3033] [3034] [3035] [3036] [3037]
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 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999,
all.derivs=FALSE) 
[3038] [3039] [3040]
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[3043] [3044]
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 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want
 to rule the world.",[] 
[3045]
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 []      \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y),
nthreads=1)[] 
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[3053] [3054]
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[]\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra
nts EP/K005251/1 and
[3055] [3056]
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 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt
ion with bam...[] 
[3057]
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 []\T1/pcr/m/n/9 for (sim in c(1,7)) { ## cycle over uncorrelated and correlate
d covariates[] 
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 []    \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]]
,na.rm=TRUE)[] 
[3058] [3059] [3060] [3061] [3062] [3063] [3064] [3065] [3066] [3067] [3068]
[3069] [3070] [3071] [3072] [3073] [3074] [3075] [3076] [3077] [3078]
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[3080]
Underfull \hbox (badness 10000) in paragraph at lines 9533--9536
[]\T1/ptm/m/n/10 The fol-low-ing func-tions are pro-vided: []\T1/pcr/m/n/10 Dim
.pdIndot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdIdnot[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 9533--9536
[]\T1/pcr/m/n/10 corMatrix.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 logDet.pd
Idnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdConstruct.pdIdnot[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3118) in paragraph at lines 9533--9536
[]\T1/pcr/m/n/10 pdFactor.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdMatrix.p
dIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 solve.pdIdnot[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 summary.pdIdnot[]\T1/ptm/m/n/10 .
[3081]
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[]\T1/ptm/m/n/10 These func-tions ([]\T1/pcr/m/n/10 pdTens[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 pdConstruct.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdFactor.p
dTens[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3108) in paragraph at lines 9589--9592
[]\T1/pcr/m/n/10 pdMatrix.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdTens
 []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 summary.pdTens[]\T1/ptm/m/n/10 ) would n
ot nor-mally be
[3082] [3083] [3084]
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 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s
cale=-1,[] 
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 []         \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi
ds=FALSE,[] 
[3085] [3086] [3087]
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[]\T1/ptm/m/n/10 just won't let you do it. In this case, the quick-est op-tion 
is some-times to clone the
[3088] [3089] [3090] [3091]
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 []        \T1/pcr/m/n/10 na.action=na.pass,cluster=NULL,discrete=TRUE,n.thread
s=1,gc.level=0,...)[] 
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[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 type=="terms" []\T1/ptm/m/n/10 or []\T1/pc
r/m/n/10 type="iterms" []\T1/ptm/m/n/10 then terms (smooth or para-
[3092] [3093]
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 []        \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL
L,...)[] 
[3094] [3095] [3096]
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 []\T1/pcr/m/n/9 x1 <- seq(.2,.8,length=m1);x2 <- seq(.2,.8,length=m2) ## margi
nal grid points[] 
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 []\T1/pcr/m/n/9 df <- data.frame(x0=rep(.5,n),x1=rep(x1,m2),x2=rep(x2,each=m1)
,x3=rep(0,n))[] 
[3097]
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 []  \T1/pcr/m/n/9 Xi[,(i-1)*9+1:9+1] <- Xp[,(i-1)*9+1:9+1] ## Xi%*%coef(b) = s
mooth deriv i[] 
[3099]
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[]\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a
tes at which
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\T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are 
as for
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[]\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f
i-ca-tion ob-jects of class
[3100]
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[]\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a
tes at which
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\T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are 
as for
[3101]
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[]\T1/ptm/m/n/10 The smooth ob-ject will be largely what is re-turned from
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[][][]\T1/pcr/m/n/10 smooth.construct.so.smooth.spec[][][][]\T1/ptm/m/n/10 , al
-though el-e-ments []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 S [
]\T1/ptm/m/n/10 are not needed,
[3102] [3103] [3104]
Underfull \hbox (badness 1253) in paragraph at lines 10959--10961
[]\T1/ptm/m/n/10 Note that the op-ti-mized smooth-ing pa-ram-e-ter se-lec-tion 
cri-te-rion re-ported is one of GCV,
[3105] [3106] [3107] [3108] [3109]
Underfull \hbox (badness 1946) in paragraph at lines 11212--11219
[]\T1/ptm/m/n/10 The sec-ond method rep-re-sents the con-ven-tional ran-dom ef-
fects in a GAM in the same
Underfull \hbox (badness 2221) in paragraph at lines 11212--11219
\T1/ptm/m/n/10 way that the smooths are rep-re-sented --- as pe-nal-ized re-gre
s-sion terms. This method
Underfull \hbox (badness 2042) in paragraph at lines 11212--11219
\T1/ptm/m/n/10 can be used with [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10
 by mak-ing use of []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms in a 
model: see
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[]\T1/ptm/m/n/10 Alternatively, but less straight-for-wardly, the []\T1/pcr/m/n
/10 paraPen []\T1/ptm/m/n/10 ar-gu-ment to [][][]\T1/pcr/m/n/10 gam[][][] []\T1
/ptm/m/n/10 can be used:
Underfull \hbox (badness 5862) in paragraph at lines 11220--11223
\T1/ptm/m/n/10 see [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 . If s
mooth-ing pa-ram-e-ter es-ti-ma-tion is by ML or REML (e.g.
[3110]
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 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat
,method="ML")[] 
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 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv
olving them)[] 
[3111]
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[]\T1/ptm/m/n/10 the type of resid-u-als wanted. Usu-ally one of []\T1/pcr/m/n/
10 "deviance"[]\T1/ptm/m/n/10 ,
[3112] [3113] [3114] [3115] [3116]
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 []\T1/pcr/m/n/10 s(..., k=-1,fx=FALSE,bs="tp",m=NA,by=NA,xt=NULL,id=NULL,sp=NU
LL,pc=NULL) 
[3117] [3118] [3119] [3120] [3121] [3122]
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 []  \T1/pcr/m/n/9 true <- mu + (del * sigma) * sinh((1/del) * asinh(qnorm(qq))
 + (eps/del))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12016--12016
 []\T1/pcr/m/n/9 b <- gam(list(accel~s(times, k=20, bs = "ad"), ~s(times, k = 1
0), ~1, ~1),[] 
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[3124]
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[]\T1/ptm/m/n/10 INTERNAL rou-tine to ap-ply ini-tial Sl re-parameterization to
 model ma-trix X, or, if
Overfull \hbox (36.78088pt too wide) in paragraph at lines 12127--12127
 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, 
cov = TRUE,[] 
[3125]
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[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p
cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re-
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[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p
cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re-
[3126] [3127] [3128]
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 [] \T1/pcr/m/n/9 range(er$values-um$values[ind]);range(abs(er$vectors)-abs(um$
vectors[,ind]))[] 
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[]\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f
i-ca-tion ob-jects of class
[3129]
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\T1/ptm/m/n/10 The last en-try will be the []\T1/pcr/m/n/10 by []\T1/ptm/m/n/10
 vari-able, if []\T1/pcr/m/n/10 object$by []\T1/ptm/m/n/10 is not []\T1/pcr/m/n
/10 "NA"[]\T1/ptm/m/n/10 .
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[]\T1/pcr/m/n/10 cs.smooth.spec []\T1/ptm/m/n/10 (cu-bic re-gres-sion splines w
ith shrinkage-to-zero); []\T1/pcr/m/n/10 cc.smooth.spec
[3130]
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[]\T1/ptm/m/n/10 method is used if there is no more spe-cific method avail-able
. Plot meth-ods can be
Underfull \hbox (badness 2970) in paragraph at lines 12445--12449
\T1/ptm/m/n/10 added for spe-cific smooth classes, see source code for []\T1/pc
r/m/n/10 mgcv:::plot.sos.smooth[]\T1/ptm/m/n/10 ,
[3131] [3132] [3133]
Underfull \hbox (badness 6876) in paragraph at lines 12640--12646
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use adap-tive smooths of on
e or two vari-ables, spec-i-fied via terms like
[3134]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3135] [3136]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3137]
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 []  \T1/pcr/m/n/9 b <- gam(y~s(x0,bs=bs,m=c(4,2))+s(x1,bs=bs)+s(x2,k=15,bs=bs,
m=c(4,3,0))+[] 
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 []  \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5,
1.5) (black)[] 
[3138]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12877--12877
 []  \T1/pcr/m/n/9 ## penalty defined on (-.5,1.5) gives plausible predictions 
and intervals[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12882--12882
 []  \T1/pcr/m/n/9 ## penalty defined on whole real line gives constant width i
ntervals away[] 
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 []  \T1/pcr/m/n/9 ## penalty defined only over the data interval (0,1) gives w
ild and wide[] 
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 []  \T1/pcr/m/n/9 ## extrapolation since penalty has been \TS1/cmtt/m/n/9 `\T1
/pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] 
[3139]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a
Underfull \hbox (badness 10000) in paragraph at lines 12958--12960
\T1/ptm/m/n/10 term []\T1/pcr/m/n/10 s(...,bs="cr",...)[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 s(...,bs="cs",...) []\T1/ptm/m/n/10 or
[3140] [3141]
Underfull \hbox (badness 10000) in paragraph at lines 13088--13089
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3142] [3143]
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 []\T1/pcr/m/n/9 b <- gam(y~s(x,z,bs="ds",m=c(1,.5),k=50),data=data)  ## first 
deriv penalty[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13170--13170
 []\T1/pcr/m/n/9 b1 <- gam(y~s(x,z,bs="ds",m=c(2,.5),k=50),data=data) ## modifi
ed 2nd deriv[] 
[3144] [3145]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3146] [3147] [3148] [3149] [3150]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13573--13573
 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m
ethod="REML")[] 
[3151]
Underfull \hbox (badness 10000) in paragraph at lines 13634--13636
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3152] [3153]
Underfull \hbox (badness 10000) in paragraph at lines 13793--13796
[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 smooth.construct []\T1/ptm/m/n/10 met
hod a smooth spec-i-fi-ca-tion ob-
Underfull \hbox (badness 3312) in paragraph at lines 13793--13796
\T1/ptm/m/n/10 ject, usu-ally gen-er-ated by a term []\T1/pcr/m/n/10 s(x,...,bs
="re",)[]\T1/ptm/m/n/10 . For the
Underfull \hbox (badness 7099) in paragraph at lines 13793--13796
[]\T1/pcr/m/n/10 predict.Matrix []\T1/ptm/m/n/10 method an ob-ject of class []\
T1/pcr/m/n/10 "random.effect"
[3154] [3155]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13879--13879
 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with
 2 variances[] 
[3156]
Underfull \hbox (badness 10000) in paragraph at lines 13924--13930
[]\T1/ptm/m/n/10 A smooth spec-i-fi-ca-tion ob-ject as pro-duced by a
Underfull \hbox (badness 7832) in paragraph at lines 13924--13930
[]\T1/pcr/m/n/10 s(...,bs="so",xt=list(bnd=bnd,...)) []\T1/ptm/m/n/10 term in a
 []\T1/pcr/m/n/10 gam []\T1/ptm/m/n/10 for-
[3157] [3158] [3159]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 14139--14139
 []\T1/pcr/m/n/9 ## notice NULL element in \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 xt\TS1
/pcr/m/n/9 ' \T1/pcr/m/n/9 list - to indicate no xt object for "cr" basis...[] 
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Underfull \vbox (badness 10000) has occurred while \output is active [3161]
Underfull \hbox (badness 10000) in paragraph at lines 14242--14250
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths on th
e sphere, via terms like
Underfull \hbox (badness 10000) in paragraph at lines 14268--14269
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3162] [3163] [3164]
Underfull \hbox (badness 7613) in paragraph at lines 14413--14416
[]\T1/ptm/m/n/10 method an ob-ject of class []\T1/pcr/m/n/10 "sz.interaction" [
]\T1/ptm/m/n/10 pro-duced by the
[3165]
Underfull \hbox (badness 1546) in paragraph at lines 14434--14435
[]\T1/ptm/m/n/10 The terms can have a smooth-ing pa-ram-e-ter per smooth, or a 
sin-gle smooth-ing pa-ram-e-
Overfull \hbox (128.58029pt too wide) in paragraph at lines 14480--14480
 []\T1/pcr/m/n/9 b <- gam(y ~ s(x)+s(f1,x,bs="sz")+s(f2,x,bs="sz")+s(f1,f2,x,bs
="sz",id=1),data=dat,method="REML")[] 
[3166] [3167] [3168]
Underfull \hbox (badness 3396) in paragraph at lines 14626--14629
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths of an
y num-ber of vari-ables, spec-i-fied via terms like
Underfull \hbox (badness 10000) in paragraph at lines 14671--14673
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3169] [3170] [3171] [3172] [3173] [3174]
Underfull \hbox (badness 10000) in paragraph at lines 14962--14964
[]\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see
[3175]
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 t2[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 tprs[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/
10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 p.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 d.sp
line[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mrf[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 soap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Spherical
.Spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 adaptive.smooth[][][][]\T1
/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 user.defined.smooth[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/
m/n/10 smooth.construct.re.smooth.spec[][][][]\T1/ptm/m/n/10 ,
[3176] [3177] [3178] [3179] [3180]
Underfull \hbox (badness 2158) in paragraph at lines 15285--15285
[]\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma-
trix from
[3181]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 15364--15364
 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0,
centre=FALSE)[] 
[3182] [3183]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 15498--15498
 []                  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars
"),...)[] 
[3184] [3185]
Underfull \hbox (badness 4846) in paragraph at lines 15629--15632
[]\T1/ptm/m/n/10 The es-ti-mated co-vari-ance ma-trix of the pa-ram-e-ters (or 
es-ti-ma-tors if
[3186] [3187] [3188] [3189] [3190] [3191] [3192] [3193] [3194] [3195] [3196]
[3197] [3198] [3199] [3200] [3201] [3202] [3203] [3204] [3205]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 16847--16847
 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL,
unconditional=FALSE, ...)[] 
[3206]
Underfull \hbox (badness 1715) in paragraph at lines 16869--16870
[]\T1/ptm/m/n/10 Basically, just ex-tracts []\T1/pcr/m/n/10 object$Ve[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 object$Vp []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 object
$Vc []\T1/ptm/m/n/10 (if avail-able) from a
[3207] [3208] [3209]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 17059--17059
 []\T1/pcr/m/n/10 XWXd(X,w,k,ks,ts,dt,v,qc,nthreads=1,drop=NULL,ar.stop=-1,ar.r
ow=-1,ar.w=-1, 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 17061--17061
 []\T1/pcr/m/n/10 XWyd(X,w,y,k,ks,ts,dt,v,qc,drop=NULL,ar.stop=-1,ar.row=-1,ar.
w=-1,lt=NULL)[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17063--17063
 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt=
NULL)[] 
[3210]
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[]\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows
Underfull \hbox (badness 1668) in paragraph at lines 17083--17084
[]\T1/pcr/m/n/10 (ar.stop[i-1]+1):ar.stop[i] []\T1/ptm/m/n/10 of the rows se-le
cted by []\T1/pcr/m/n/10 ar.row
[3211]
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[3213]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17271--17271
 []\T1/pcr/m/n/9 ## 1. If the zero inflation rate becomes decoupled from the li
near predictor,[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 17272--17272
 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun
ded in regions[] 
[3214]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17284--17284
 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val
ues, to check we[] 
[3215] [3216] [3217]) (./nlme-pkg.tex [3218]
Chapter 25.
[3219]
Underfull \hbox (badness 1009) in paragraph at lines 84--93
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3220]
Underfull \hbox (badness 1009) in paragraph at lines 174--183
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3221] [3222] [3223] [3224] [3225]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 454--454
 []  \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3226] [3227]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 595--595
 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 ---------------------------
---------------[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 611--611
 []\T1/pcr/m/n/9 # Compare an "lme" object with a "gls" object (test would be n
on-sensical!)[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 614--614
 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 ---------------------------
---------------[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 621--621
 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 ---------------------------
---------------[] 
[3228] [3229] [3230] [3231] [3232] [3233] [3234] [3235]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1084--1084
 []                  \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil
lary fissure"),[] 
[3236]
Underfull \hbox (badness 5446) in paragraph at lines 1146--1148
[]\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 http://stat.gamma.rug.nl/snijders/multilevel
.htm[]\T1/ptm/m/n/10 ', the first edi-tion of
[3237] [3238] [3239] [3240] [3241] [3242] [3243]
Underfull \hbox (badness 10000) in paragraph at lines 1625--1628
[][][]\T1/pcr/m/n/10 lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fixed.
effects.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ranef.lmList[][][][
]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.ranef.lmList[][][][]\T1/ptm/m/n/10 
,
[3244]
Underfull \hbox (badness 3780) in paragraph at lines 1642--1644
[]\T1/ptm/m/n/10 This method func-tion ex-tracts the co-ef-fi-cients as-so-ci-a
ted with each com-po-nent of the
[3245] [3246] [3247] [3248] [3249]
Underfull \hbox (badness 2042) in paragraph at lines 1989--1995
\T1/ptm/m/n/10 is in-ner to the []\T1/pcr/m/n/10 displayLevel []\T1/ptm/m/n/10 
group-ing fac-tor. If equal to []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 ,
[3250] [3251]
Underfull \hbox (badness 1132) in paragraph at lines 2141--2143
[]\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac
ted us-ing the
[3252] [3253]
Underfull \hbox (badness 4168) in paragraph at lines 2252--2258
[][][]\T1/pcr/m/n/10 ACF.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corAR
MA[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 Dim.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 ,
[3254]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2277--2277
 []  \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3255] [3256] [3257] [3258] [3259] [3260] [3261] [3262]
Underfull \hbox (badness 10000) in paragraph at lines 2842--2846
[][][]\T1/pcr/m/n/10 corFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cor
Matrix.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 recalc.corStruct[
][][][]\T1/ptm/m/n/10 ,
[3263] [3264] [3265] [3266] [3267] [3268pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d
uplicate ignored
<argument> ...shipout:D \box_use:N \l_shipout_box 
                                                  
l.3185 ...trix(cs1, covariate = 1:4, corr = FALSE)
                                                  ] [3269] [3270] [3271]
[3272] [3273] [3274]
Underfull \hbox (badness 6493) in paragraph at lines 3577--3585
[][][]\T1/pcr/m/n/10 corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corGau
s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corLin[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corSp
her[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T
1/ptm/m/n/10 ,
[3275] [3276] [3277] [3278] [3279] [3280] [3281] [3282] [3283] [3284] [3285]
[3286] [3287] [3288] [3289] [3290] [3291] [3292] [3293] [3294] [3295] [3296]
[3297] [3298]
Underfull \hbox (badness 10000) in paragraph at lines 5157--5161
[][][]\T1/pcr/m/n/10 getCovariate.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/p
cr/m/n/10 getCovariate.data.frame[][][][]\T1/ptm/m/n/10 ,
[3299] [3300] [3301] [3302] [3303] [3304] [3305]
Underfull \hbox (badness 10000) in paragraph at lines 5591--5594
[][][]\T1/pcr/m/n/10 getGroupsFormula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGroups
.gls[][][][]\T1/ptm/m/n/10 ,
[3306] [3307] [3308] [3309] [3310] [3311] [3312] [3313] [3314]
Underfull \hbox (badness 2799) in paragraph at lines 6097--6103
\T1/ptm/m/n/10 covariance ma-trix, ei-ther []\T1/pcr/m/n/10 "random.effects" []
\T1/ptm/m/n/10 for the random-effects
[3315]
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[]\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [
]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 ,
[3316]
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[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gl
sControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 glsObject[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 plot.gls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gls[][][][]
\T1/ptm/m/n/10 ,
[3317]
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[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3318] [3319] [3320] [3321]
Underfull \hbox (badness 7133) in paragraph at lines 6558--6562
[]\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [
]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 ,
[3322]
Underfull \hbox (badness 10000) in paragraph at lines 6655--6661
[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gn
lsControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsObject[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 predict.gnls[][][][]\T1/ptm/m/n/10 ,
Overfull \hbox (54.78088pt too wide) in paragraph at lines 6682--6682
 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min
Scale = 0.001, 
[3323]
Underfull \hbox (badness 10000) in paragraph at lines 6720--6722
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3324] [3325] [3326] [3327]
Underfull \hbox (badness 10000) in paragraph at lines 6989--6996
[][][]\T1/pcr/m/n/10 formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gappl
y[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gsummary[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nff
GroupedData[][][][]\T1/ptm/m/n/10 ,
[3328]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7007--7007
 []                \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla
ry fissure" ),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7012--7012
 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new )   # fixed and groups formulae extracted
 from object[] 
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[]\T1/ptm/m/n/10 an ob-ject to be sum-ma-rized - usu-ally a []\T1/pcr/m/n/10 gr
oupedData []\T1/ptm/m/n/10 ob-ject or a
[3329] [3330] [3331]
Underfull \hbox (badness 10000) in paragraph at lines 7249--7254
[][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr
/m/n/10 Initialize.lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi
alize.glsStruct[][][][]\T1/ptm/m/n/10 ,
[3332] [3333] [3334]
Underfull \hbox (badness 1997) in paragraph at lines 7400--7408
[]\T1/ptm/m/n/10 an op-tional list with con-trol pa-ram-e-ters for the ini-tial
-iza-tion and op-ti-
Underfull \hbox (badness 2205) in paragraph at lines 7400--7408
\T1/ptm/m/n/10 miza-tion al-go-rithms used in []\T1/pcr/m/n/10 lme[]\T1/ptm/m/n
/10 . De-faults to []\T1/pcr/m/n/10 list(niterEM=20,
Underfull \hbox (badness 3118) in paragraph at lines 7423--7426
[][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initializ
e.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.varFunc[][][][]\T1/ptm/m/
n/10 ,
[3335] [3336] [3337]
Underfull \hbox (badness 3354) in paragraph at lines 7639--7641
[]\T1/ptm/m/n/10 linear model co-ef-fi-cients, only present when []\T1/pcr/m/n/
10 which []\T1/ptm/m/n/10 is not equal to
[3338] [3339] [3340] [3341] [3342] [3343] [3344] [3345]
Underfull \hbox (badness 10000) in paragraph at lines 8166--8183
[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lm
e.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme.groupedData[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmeControl[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 lmeObject[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 8166--8183
[][][]\T1/pcr/m/n/10 lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmL
ist[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 plot.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
predict.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qqnorm.lme[][][][]\T1/
ptm/m/n/10 ,
[3346]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 8209--8209
 []    \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data 
= TRUE)[] 
Underfull \hbox (badness 1642) in paragraph at lines 8218--8240
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o
f the form
[3347] [3348] [3349] [3350]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8483--8483
 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni
terEM = 25, 
Underfull \hbox (badness 1189) in paragraph at lines 8508--8510
[]\T1/ptm/m/n/10 maximum num-ber of eval-u-a-tions of the ob-jec-tive func-tion
 per-mit-ted for
[3351]
Underfull \hbox (badness 10000) in paragraph at lines 8531--8533
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8574--8574
 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio
ns be printed[] 
[3352] [3353] [3354] [3355] [3356] [3357] [3358] [3359] [3360] [3361] [3362]
[3363]
Underfull \hbox (badness 10000) in paragraph at lines 9337--9344
[][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 gls[][][][
]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.corStruct[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 logLik.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 logLik.lmeStruct[][][][]\T1/ptm/m/n/10 ,
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9348--9348
 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me
thod = "ML") 
[3364] [3365] [3366] [3367] [3368]pdfTeX warning (ext4): destination with the s
ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9699 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.Matrix.1}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.9699 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                   [3369]
Underfull \hbox (badness 10000) in paragraph at lines 9719--9722
[]\T1/ptm/m/n/10 a ma-trix, or list of ma-tri-ces, with the same di-men-sions a
s
Underfull \hbox (badness 3108) in paragraph at lines 9763--9766
[]\T1/ptm/m/n/10 a ma-trix with the new val-ues to be as-signed to the positive
-definite
Underfull \hbox (badness 2521) in paragraph at lines 9763--9766
\T1/ptm/m/n/10 ma-trix rep-re-sented by []\T1/pcr/m/n/10 object[]\T1/ptm/m/n/10
 . Must have the same di-men-sions as
[3370] [3371] [3372] [3373] [3374] [3375] [3376] [3377] [3378] [3379] [3380]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10443--10443
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights, 
[3381]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10447--10447
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
Underfull \hbox (badness 1596) in paragraph at lines 10476--10502
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o
f the form
[3382] [3383]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10630--10630
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
[3384] [3385] [3386]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 10781--10781
 []            \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma =
 NULL, ...)[] 
Underfull \hbox (badness 2213) in paragraph at lines 10792--10797
[]\T1/ptm/m/n/10 maximum num-ber of it-er-a-tions for [][][]\T1/pcr/m/n/10 nlmi
nb[][][] []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 iter.max[]\T1/ptm/m/n/10 ) or the [
][][]\T1/pcr/m/n/10 nlm[][][]
Underfull \hbox (badness 6961) in paragraph at lines 10814--10818
[]\T1/ptm/m/n/10 a log-i-cal value passed as the []\T1/pcr/m/n/10 trace []\T1/p
tm/m/n/10 to [][][]\T1/pcr/m/n/10 nlminb[][][](.., control=
[3387]
Underfull \hbox (badness 10000) in paragraph at lines 10833--10835
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3388] [3389] [3390] [3391]
Overfull \hbox (96.18033pt too wide) in paragraph at lines 11129--11129
 []\T1/pcr/m/n/9 cfm1 <- confint(fm1) # via profiling each % FIXME: only *one* 
message instead of one *each*[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 11130--11130
 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4
.0.0;  ("matrix" in older R)[] 
[3392] [3393] [3394] [3395] [3396] [3397]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11520--11520
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3398] [3399] [3400] [3401] [3402] [3403]
Underfull \hbox (badness 6268) in paragraph at lines 11907--11917
[][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC
ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdMatrix[][][][]\T1/ptm/m/n/10 ,
[3404] [3405] [3406] [3407]
Underfull \hbox (badness 10000) in paragraph at lines 12168--12174
[][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 coef.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 pdConstruct[][][][]\T1/ptm/m/n/10 ,
[3408] [3409] [3410] [3411] [3412]
Underfull \hbox (badness 6876) in paragraph at lines 12490--12492
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 value []\T1/ptm/m/n/10 is an \T1/ptm/m/it/
10 ini-tial-ized []\T1/pcr/m/n/10 pdMat []\T1/ptm/m/n/10 ob-ject, []\T1/pcr/m/n
/10 object []\T1/ptm/m/n/10 will be con-structed from
[3413] [3414]
Underfull \hbox (badness 2452) in paragraph at lines 12646--12653
[][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC
ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
pdNatural[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdSymm[][][][]\T1/ptm/m/
n/10 , [][][]\T1/pcr/m/n/10 reStruct[][][][]\T1/ptm/m/n/10 ,
[3415]
Underfull \hbox (badness 10000) in paragraph at lines 12712--12718
[][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 pdMatrix.reStruct[][][][]\T1/ptm/m/n/10 ,
[3416] [3417] [3418] [3419] [3420] [3421] [3422] [3423] [3424]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 13301--13301
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3425] [3426] [3427] [3428] [3429]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13666--13666
 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 
0, id = 0.05)[] 
[3430]
Underfull \hbox (badness 10000) in paragraph at lines 13693--13696
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nffGroupe
dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a
[3431]
Underfull \hbox (badness 1838) in paragraph at lines 13736--13743
[]\T1/ptm/m/n/10 an op-tional log-i-cal func-tion or func-tion. If []\T1/pcr/m/
n/10 TRUE []\T1/ptm/m/n/10 and ei-ther []\T1/pcr/m/n/10 inner
Underfull \hbox (badness 3713) in paragraph at lines 13736--13743
[]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 innerGroups []\T1/ptm/m/n/10 are non-[]\T1
/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , a leg-end for the dif-fer-ent []\T1/pcr/m/n/
10 inner
Overfull \hbox (12.78088pt too wide) in paragraph at lines 13793--13793
 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect,
 panel,[] 
[3432]
Underfull \hbox (badness 10000) in paragraph at lines 13800--13803
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nfnGroupe
dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a
Underfull \hbox (badness 2469) in paragraph at lines 13800--13803
[]\T1/pcr/m/n/10 groupedData []\T1/ptm/m/n/10 ob-ject with a nu-meric pri-mary 
co-vari-ate and a sin-gle
[3433]
Underfull \hbox (badness 10000) in paragraph at lines 13908--13911
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nmGrouped
Data[]\T1/ptm/m/n/10 , rep-re-sent-ing a
[3434] [3435]
Underfull \hbox (badness 10000) in paragraph at lines 14002--14004
[][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 c
ollapse.groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nfnGroupe
dData[][][][]\T1/ptm/m/n/10 ,
[3436] [3437] [3438] [3439] [3440] [3441] [3442] [3443]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 14526--14526
 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female",
"Male","Male"),[] 
[3444] [3445] [3446] [3447] [3448] [3449] [3450] [3451] [3452]pdfTeX warning (e
xt4): destination with the same identifier (name{Rfn.random.effects}) has been 
already used, duplicate ignored
<to be read again> 
                   \relax 
l.15179 ...Extract Random Effects}{random.effects}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.random.effects.1}) has been already us
ed, duplicate ignored
<to be read again> 
                   \relax 
l.15179 ...Extract Random Effects}{random.effects}
                                                   [3453] [3454] [3455]
[3456] [3457] [3458] [3459] [3460] [3461] [3462] [3463]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 15826--15826
 []\T1/pcr/m/n/9 plot(Remifentanil, type = "l", lwd = 2) # shows the 65 patient
s\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 remi profiles 
[3464]
Underfull \hbox (badness 1009) in paragraph at lines 15878--15887
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3465] [3466]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 16025--16025
 []          \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi
st = FALSE, ...)[] 
[3467] [3468] [3469] [3470] [3471]
Underfull \hbox (badness 10000) in paragraph at lines 16360--16366
[][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 l
me[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 solve.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 summary.reStruct[][][][]\T1/ptm/m/n/10 ,
[3472]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 16392--16392
 []         \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG
en, ...)[] 
[3473] [3474] [3475] [3476] [3477] [3478] [3479]
Underfull \hbox (badness 1728) in paragraph at lines 16878--16881
[]\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou
t-put in the
[3480] [3481] [3482] [3483] [3484]
Underfull \hbox (badness 1803) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 of an Identity" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdIdent[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Positive-Definite,
Underfull \hbox (badness 10000) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 Natural Parametrization" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 p
dNatural[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General
Underfull \hbox (badness 7888) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 Positive-Definite" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdSymm[
]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 data.class(object)
[3485]
Underfull \hbox (badness 10000) in paragraph at lines 17283--17284
[]\T1/pcr/m/n/10 "Constant plus power of variance
Underfull \hbox (badness 10000) in paragraph at lines 17284--17285
[]\T1/pcr/m/n/10 "Constant plus proportion of variance
[3486] [3487] [3488] [3489]
Underfull \hbox (badness 10000) in paragraph at lines 17534--17542
[][][]\T1/pcr/m/n/10 varComb[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varCo
nstPower[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varConstProp[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 varExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 varFixed[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varIdent[][][][]\T1
/ptm/m/n/10 ,
[3490] [3491] [3492] [3493]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 17806--17806
 []\T1/pcr/m/n/9 # Generate some synthetic data using the two-component error m
odel and use 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17808--17808
 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v
ariance function[] 
[3494] [3495] [3496] [3497] [3498] [3499]
Underfull \hbox (badness 10000) in paragraph at lines 18244--18254
[][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co
rLin[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 18244--18254
[][][]\T1/pcr/m/n/10 Variogram.corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 Variogram.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogr
am.corSpher[][][][]\T1/ptm/m/n/10 ,
[3500]
Underfull \hbox (badness 3579) in paragraph at lines 18282--18287
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3501]
Underfull \hbox (badness 3579) in paragraph at lines 18346--18351
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3502]
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3503]
Underfull \hbox (badness 1577) in paragraph at lines 18470--18472
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 "[][]corR
atio[][][]"[]\T1/ptm/m/n/10 , rep-re-sent-ing an Ra-tio-nal
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3504]
Underfull \hbox (badness 3579) in paragraph at lines 18535--18540
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
Underfull \hbox (badness 10000) in paragraph at lines 18568--18577
[][][]\T1/pcr/m/n/10 corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Va
riogram[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.default[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 18568--18577
[][][]\T1/pcr/m/n/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 Variogram.corLin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co
rRatio[][][][]\T1/ptm/m/n/10 ,
[3505]
Underfull \hbox (badness 3579) in paragraph at lines 18607--18612
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3506] [3507]
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[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3508] [3509]
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[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3510] [3511] [3512] [3513] [3514] [3515] [3516] [3517] [3518]) (./nnet-pkg.tex
Chapter 26.
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.multinom}
) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.47 ...t Multinomial Log-linear Models}{multinom}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.multinom.1}) has been already used, du
plicate ignored
<to be read again> 
                   \relax 
l.47 ...t Multinomial Log-linear Models}{multinom}
                                                   [3519]
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 []         \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored =
 FALSE,[] 
[3520] [3521] [3522]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 371--371
 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3523]
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 []\T1/pcr/m/n/9 targets <- matrix(c(rep(c(1,0,0),50), rep(c(0,1,0),50), rep(c(
0,0,1),50)),[] 
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 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay
=5e-4, maxit=200)[] 
[3524] [3525]
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 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3526]) (./rpart-pkg.tex
Chapter 27.
[3527] [3528] [3529] [3530]
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 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse =
 TRUE, ...)[] 
[3531]
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\T1/ptm/m/n/10 age: []\T1/pcr/m/n/10 pretty = 0 []\T1/ptm/m/n/10 im-plies []\T1
/pcr/m/n/10 minlength = 0L[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pretty = NULL []\
T1/ptm/m/n/10 im-plies
[3532] [3533] [3534]
Underfull \hbox (badness 1442) in paragraph at lines 592--598
[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , the leaf nodes wil
l be at the hor-i-zon-tal plot co-or-di-nates of
[3535] [3536]
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 []     \T1/pcr/m/n/10 filename = paste(deparse(substitute(tree)), ".ps", sep =
 ""),[] 
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[]\T1/ptm/m/n/10 Logical. If []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault),
 adds to the la-bel
Underfull \hbox (badness 1142) in paragraph at lines 771--775
\T1/pcr/m/n/10 #events level1/ #events level2/ \T1/ptm/m/n/10 etc. for method [
]\T1/pcr/m/n/10 class[]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 n
[3537] [3538] [3539]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 915--915
 []\T1/pcr/m/n/9 predict(fit, type = "matrix") # level number, class frequencie
s, probabilities[] 
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 []\T1/pcr/m/n/10 print(x, minlength = 0, spaces = 2, cp, digits = getOption("d
igits"),[] 
[3540] [3541] [3542] [3543]
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 []\T1/pcr/m/n/10 rpart(formula, data, weights, subset, na.action = na.rpart, m
ethod, 
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 []      \T1/pcr/m/n/10 model = FALSE, x = FALSE, y = TRUE, parms, control, cos
t, ...)[] 
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[]\T1/ptm/m/n/10 a list of op-tions that con-trol de-tails of the []\T1/pcr/m/n
/10 rpart []\T1/ptm/m/n/10 al-go-rithm. See
[3544]
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 []\T1/pcr/m/n/9 par(mfrow = c(1,2), xpd = NA) # otherwise on some devices the 
text is clipped[] 
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 []\T1/pcr/m/n/10 rpart.control(minsplit = 20, minbucket = round(minsplit/3), c
p = 0.01, 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1304--1304
 []              \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate 
= 2, xval = 10,[] 
[3545] [3546] [3547] [3548] [3549] [3550] [3551]
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[]\T1/ptm/m/n/10 the ploidy sta-tus of the tu-mor, from flow cy-tom-e-try. Val-
ues are `[]\T1/pcr/m/n/10 diploid[]\T1/ptm/m/n/10 ',
[3552]
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 []     \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n =
 FALSE,[] 
[3553] [3554] [3555]) (./spatial-pkg.tex [3556]
Chapter 28.
[3557] [3558] [3559] [3560] [3561] [3562]
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[3563] [3564] [3565] [3566] [3567] [3568] [3569] [3570] [3571] [3572] [3573]
[3574] [3575]) (./survival-pkg.tex [3576]
Chapter 29.
[3577] [3578]
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 []\T1/pcr/m/n/9 aareg(formula = Surv(time, status) ~ age + sex + ph.ecog, data
 = lung, nmin = 1[] 
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 []\T1/pcr/m/n/9 ## Not run: lines(lfit2[4], col=2)  # Nearly the same, until t
he last point[] 
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 []\T1/pcr/m/n/9 # Chronic Granuomatous Disease.  See section 8.5 of Therneau a
nd Grambsch.[] 
[3579] [3580]
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[]\T1/ptm/m/n/10 an op-tional list or vec-tor of group-ing el-e-ments, each as 
long as
[3581] [3582]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.aml}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.384 ... Myelogenous Leukemia survival data}{aml}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.aml.1}) has been already used, duplica
te ignored
<to be read again> 
                   \relax 
l.384 ... Myelogenous Leukemia survival data}{aml}
                                                   [3583]
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 []\T1/pcr/m/n/9 fit <- coxph(Surv(futime, fustat) ~ resid.ds *rx + ecog.ps, da
ta = ovarian) 
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 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d
ata=ovarian)[] 
[3584]
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 []    \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog),
 lung)[] 
[3585]
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[]\T1/ptm/m/n/10 If H(t; z) is the pre-dicted cu-mu-la-tive haz-ard for an ob-s
er-va-tion with co-vari-ate vec-tor z,
[3586] [3587] [3588]
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 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) #
2 year survival 
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 []\T1/pcr/m/n/10 brier(fit, times, newdata, ties = TRUE, detail = FALSE, timef
ix = TRUE, 
[3589]
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 []    \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan",
"II.Borgan"),[] 
[3590] [3591] [3592]
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 []   \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz
e=stratsizes,[] 
[3593] [3594]
Underfull \hbox (badness 1097) in paragraph at lines 1205--1207
[]\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi
al and negative-binomial data.
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 []\T1/pcr/m/n/9 ppois(4, 10.24153)     #chance of seeing 4 or fewer events wit
h large rate[] 
[3595] [3596]
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 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat
um), data=infert) 
[3597]
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 []\T1/pcr/m/n/9 marginal.model <- coxph(Surv(time, status) ~ rx, data= rats, c
luster=litter, 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colon}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1407 ...erapy for Stage B/C colon cancer}{colon}
                                                   [3598] [3599]
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 []  \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke
epstrata=10, ...)[] 
[3600] [3601] [3602]
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 []\T1/pcr/m/n/9 options(na.action = na.exclude)   # predict all 1384 obs, incl
uding missing[] 
[3603]
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 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob
al=TRUE) 
[3604] [3605] [3606] [3607]
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[]\T1/ptm/m/n/10 One user mis-take that has re-cently arisen is to slav-ishly f
ol-low the ad-vice of
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\T1/ptm/m/n/10 some cod-ing guides and prepend []\T1/pcr/m/n/10 survival:: []\T
1/ptm/m/n/10 onto ev-er-thing, in-clud-ing the spe-
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\T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv
(time, status) ~ age +
[3608] [3609]
Underfull \hbox (badness 3861) in paragraph at lines 2238--2242
[][][]\T1/pcr/m/n/10 coxph.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
coxphms.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxph.control[][][]
[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cluster[][][][]\T1/ptm/m/n/10 , [][][]\
T1/pcr/m/n/10 strata[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Surv[][][][]\
T1/ptm/m/n/10 ,
[3610]
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 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix
=TRUE)[] 
[3611] [3612] [3613] [3614] [3615] [3616] [3617] [3618]
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 [] \T1/pcr/m/n/9 [1] "extreme"     "logistic"    "gaussian"    "weibull"     "
exponential"[] 
[3619]
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 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, 
etype, 
[3620] [3621] [3622]
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 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t
df = 5,[] 
[3623] [3624] [3625]
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[]\T1/ptm/m/n/10 outcome: []\T1/pcr/m/n/10 censor[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 thymic lymphoma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 reticulum cell sarcoma
 other
[3627] [3628]
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 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt
y(id), kidney) 
[3629]
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 []           \T1/pcr/m/n/9 factor(c(0, 1, 2,1,0,2), 0:2, c("censored", "progre
ssion", "death")))[] 
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[]\T1/ptm/m/n/10 Often used to add the ex-pected sur-vival curve(s) to a Kaplan
-Meier plot gen-er-ated with
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 []        \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar
csin"),[] 
[3630] [3631]
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 []                 \T1/pcr/m/n/9 rmap=list(sex=sex, age=age*365.35, year=as.Da
te(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 1979/01/01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] 
[3632] [3633]
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 [] [] 
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[3635]
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 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential
ly the same.[] 
[3636] [3637] [3638] [3639] [3640] [3641] [3642] [3643]
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 []                    \T1/pcr/m/n/9 entry.dt = as.Date(paste("2011", 1:10, "5"
, sep=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 -\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] 
[3644] [3645]
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 []\T1/pcr/m/n/9 tdata <- data.frame(x= lung$age, y = 10*log(lung$age-35) + rno
rm(228, 0, 2))[] 
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 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] 
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 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1])  # differences: yhat[2:
4] - yhat[1][] 
[3646]
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[3648] [3649] [3650]
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 []        \T1/pcr/m/n/10 xlab="Time", ylab, lty=1:2, col=1, lwd=1, hr=FALSE, p
lot=TRUE, ...)[] 
[3651] [3652]
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 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca
le=1,[] 
[3653] [3654] [3655]
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 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), 
collapse,[] 
[3656] [3657]
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 []\T1/pcr/m/n/9 mresid <- (lung$status-1) - predict(fit, type=\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 expected\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ) #Martingale resid[] 
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 []  \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means
, na.rm=TRUE)[] 
[3658]
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 []\T1/pcr/m/n/9 pct <- 1:98/100   # The 100th percentile of predicted survival
 is at +infinity[] 
[3659]
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 []  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE
, ...)[] 
[3660]
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[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.survfit"[]\T1/pt
m/m/n/10 , which is the re-sult of the
[3661] [3662] [3663] [3664]
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 []\T1/pcr/m/n/9 rhat <- predict(rfit, newdata=expand.grid(ph.ecog=0:3, sex=1:2
), se.fit=TRUE)[] 
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 []\T1/pcr/m/n/9 # the estimate for ph.ecog=3 is very unstable (n=1), pseudoval
ues smooth it.[] 
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 []\T1/pcr/m/n/9 # In all the above we should be using the robust variance, e.g
., svyglm, but[] 
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 []\T1/pcr/m/n/10 pspline(x, df=4, theta, nterm=2.5 * df, degree=3, eps=0.1, me
thod, 
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 []   \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co
mbine, ...)[] 
[3665] [3666] [3667]
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 []  \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year=
entry.dt),[] 
[3668]
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 []\T1/pcr/m/n/9 pfit <- pyears(Surv(ptime/365.25, pstat) ~ temp.yr + temp.age 
+ sex,  mgus,[] 
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 []\T1/pcr/m/n/9 fit1 <- pyears(Surv(stop/365.25, event) ~ cut(age + 48, c(0,50
,60,70,100)) +[] 
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 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5
0,60,70,100)) +[] 
[3669] [3670] [3671] [3672]
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[3674] [3675]
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 []\T1/pcr/m/n/9 #  natural target, an estimate of the number of replacements b
y a given time[] 
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 []\T1/pcr/m/n/9 # When two valve seats failed at the same inspection, we need 
to jitter one[] 
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 []\T1/pcr/m/n/9 ties <- which(with(valveSeat, diff(id)==0 & diff(time)==0))  #
first of a tie[] 
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 []\T1/pcr/m/n/9 vdata$time1 <- ifelse(!duplicated(vdata$id), 0, c(0, temp[-len
gth(temp)]))[] 
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 []       \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe
tas")), ...)[] 
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[3678]
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"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ldshape"[]\T1/ptm/m/n/10 , and
[3679] [3680] [3681] [3682] [3683]
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 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the
ta=5), lung)[] 
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 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog
, theta=1), lung)[] 
[3684] [3685] [3686]
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[3687]
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 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)]  # rem
ove duplicate times[] 
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 []\T1/pcr/m/n/9 wt2 <- rttright(Surv(dtime, death) ~ hormon, rotterdam, times=
 365*c(3, 5))[] 
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r =expected,[] 
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ne = FALSE,[] 
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 []  \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/
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)[] 
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10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 left\TS1/pcr/m/n/10 '\T1/p
cr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval\TS1/pcr/m/n/10 '\T1/pcr/m/
n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 counting\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 
, \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval2\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \T
S1/pcr/m/n/10 '\T1/pcr/m/n/10 mstate\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ),[] 
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 median[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10
 quantile []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 meth-ods 
first con-struct a sur-vival curve us-ing
[3703] [3704]
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ss, id, 
[3707] [3708] [3709]
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[3710]
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[]\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre
-dicted sur-vival
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[3712]
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 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival 
by 1/2 years[] 
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[][][]\T1/pcr/m/n/10 survfit.formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 survfit.coxph[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 survfit.object[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.survfit[][][][]\T1/ptm/m/n/10 
,
[3716]
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[3720]
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n at the
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lent to []\T1/pcr/m/n/10 stype=2,
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 []\T1/pcr/m/n/9 #  There are no interval censored subjects, only left-censored
 (status=3),[] 
[3724] [3725] [3726] [3727] [3728]
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 survtype, 
[3729]
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[]\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th
e time range
[3730]
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 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # 
use concordance 
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\T1/ptm/m/n/10 it is as-sumed to name an el-e-ment from [][][]\T1/pcr/m/n/10 su
rvreg.distributions[][][][]\T1/ptm/m/n/10 .
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\T1/ptm/m/n/10 These in-clude []\T1/pcr/m/n/10 "weibull"[]\T1/ptm/m/n/10 , []\T
1/pcr/m/n/10 "exponential"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "gaussian"[]\T1/p
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t is
[3733]
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on. The survreg[] 
[3734] [3735] [3736]
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[3739] [3740]
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0, data=test)[] 
[3741] [3742]
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al trial plus[] 
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 []\T1/pcr/m/n/9 # 106 that agreed to be followed off protocol, the second data
 set has data[] 
[3743]
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, alk.phos))[] 
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 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil
i), data=pbc2)[] 
[3744] [3745] [3746] [3747] [3748] [3749] [3750]
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[3751] [3752] [3753]) [3754]
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Chapter 1.
[3] [4]
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[]\T1/ptm/m/n/10 the small-est pos-i-tive floating-point num-ber []\T1/pcr/m/n/
10 x []\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 + x != 1[]\T1/ptm/m/n/10 .
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\T1/ptm/m/n/10 It equals []\T1/pcr/m/n/10 double.base ^ ulp.digits []\T1/ptm/m/
n/10 if ei-ther []\T1/pcr/m/n/10 double.base []\T1/ptm/m/n/10 is
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\T1/ptm/m/n/10 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0; oth
-er-wise, it is []\T1/pcr/m/n/10 (double.base ^
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[]\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/pcr/m/n/10 x [
]\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It
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\T1/ptm/m/n/10 equals []\T1/pcr/m/n/10 double.base ^ double.neg.ulp.digits []\T
1/ptm/m/n/10 if []\T1/pcr/m/n/10 double.base
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[]\T1/ptm/m/n/10 is 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0
; oth-er-wise, it is []\T1/pcr/m/n/10 (double.base
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\T1/pcr/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/p
cr/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As
[5]
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[]\T1/ptm/m/n/10 the num-ber of \T1/ptm/m/it/10 bytes \T1/ptm/m/n/10 in the C [
]\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 type: a 64-bit []\T1/pcr/m/n/10 time_t 
[]\T1/ptm/m/n/10 (value
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[]\T1/pcr/m/n/10 8[]\T1/ptm/m/n/10 ) is much pre-ferred these days. Note that t
his is the type used by
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[]\T1/ptm/m/n/10 introduced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.0.0. When [][]
[]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 is
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[]\T1/pcr/m/n/10 *.exponent[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 *.min.exp[]\T1/p
tm/m/n/10 , and []\T1/pcr/m/n/10 *.max.exp[]\T1/ptm/m/n/10 , com-puted en-tirel
y anal-o-gously to their
[6]
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[]\T1/ptm/m/n/10 Note that it is le-gal for a plat-form to have a `[]\T1/pcr/m/
n/10 long double[]\T1/ptm/m/n/10 ' C type which is
Underfull \hbox (badness 6691) in paragraph at lines 255--260
\T1/ptm/m/n/10 iden-ti-cal to the `[]\T1/pcr/m/n/10 double[]\T1/ptm/m/n/10 ' ty
pe --- this hap-pens on ARM CPUs. In that case
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[][][]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 will be
 false but on ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 prior to 4.0.4,
[7]
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[][][]\T1/pcr/m/n/10 R.version[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 
Sys.info[][][] []\T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-l
ar,
[8] [9] [10]
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[]\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[]
\T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ',
[11]
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 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, v
alue = TRUE)[] 
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 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, i
gnore.case = TRUE)[] 
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 []          \T1/pcr/m/n/10 ..., check.attributes = TRUE, check.class = TRUE, g
iveErr = FALSE)[] 
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 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) 
# "absolute"[] 
[16]
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 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean 
rel.diff.=",[] 
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 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE)# "target is 
bar, current is numeric"[] 
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 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE, check.class 
= FALSE) # TRUE[] 
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 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F
ALSE) 
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[]\T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion, where \T1/phv/m/n/10 R \T1/p
tm/m/n/10 uses ``floored'' in-te-ger di-vi-sion, i.e., []\T1/pcr/m/n/10 q <- x 
%/% y :=
[26]
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\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle
 . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[27] [28] [29] [30]
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 []              \T1/pcr/m/n/10 cut.names = FALSE, col.names = names(x), fix.em
pty.names = TRUE,[] 
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[]\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more
 than 256 (or
[32] [33] [34] [35]
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 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen
t-date-and-times-in-MATLAB.html)[] 
[36]
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[]\T1/ptm/m/n/10 If [][][]\T1/pcr/m/n/10 is.object[][][](x) []\T1/ptm/m/n/10 is
 true and it has a [][][]\T1/pcr/m/n/10 class[][][] []\T1/ptm/m/n/10 for which 
an
[37] [38] [39] [40]
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 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla
ss "POSIXlt"[] 
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[]\T1/ptm/m/n/10 There are no re-stric-tions on the name given as []\T1/pcr/m/n
/10 x[]\T1/ptm/m/n/10 : it can be a non-syntactic name (see
[44] [45]
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 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back
tick=FALSE), 
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[]\T1/pcr/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[]
[][] ver-sion of []\T1/pcr/m/n/10 balancePOSIXlt(x,
[53] [54] [55] [56]
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 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", nus), col = nus + 2, 
lwd = 1, bty="n")[] 
[57]
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 []\T1/pcr/m/n/9 plot(range(x0), c(1e-40, 1), log = "xy", xlab = "x", ylab = ""
, type = "n",[] 
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 []     \T1/pcr/m/n/9 main = "Bessel Functions  J_nu(x)  near 0\n log - log  sc
ale") ; axis(2, at=1)[] 
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 []\T1/pcr/m/n/9 plot(range(x0), 10^c(-100, 80), log = "xy", xlab = "x", ylab =
 "", type = "n",[] 
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 []     \T1/pcr/m/n/9 main = "Bessel Functions  K_nu(x)  near 0\n log - log  sc
ale") ; axis(2, at=1)[] 
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 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", paste(nus, nus + 0.5,
 sep = ", ")),[] 
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[]\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim
-ited by set-ting
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 []\T1/pcr/m/n/9 L <- as.list(E <- setNames( , c("if", "for", "while", "repeat"
, "function",[] 
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 []                                  \T1/pcr/m/n/9 "(", "{", "[",  "<-", "<<-",
 "->", "=")))[] 
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 []\T1/pcr/m/n/9 for(i in seq_along(L)) L[[i]] <- call(E[[i]]) # instead of lap
ply(E, call) ..[] 
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 []\T1/pcr/m/n/9 list_ <- function (...) \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 names<-
\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 (list(...), vapply(sys.call()[-1L], as.character
, ""))[] 
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 []\T1/pcr/m/n/9 (Tab <- noquote(sapply(list_(is.call, typeof, class, mode), \(
F) sapply(L, F))))[] 
[72]
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[]\T1/ptm/m/n/10 a char-ac-ter string giv-ing the name of a C func-tion, or an 
ob-ject
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\T1/ptm/m/n/10 of class []\T1/pcr/m/n/10 "[][]NativeSymbolInfo[][][]"[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 "[][]RegisteredNativeSymbol[][][]" []\T1/ptm/m/n/10 o
r
[73]
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 []             \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif
f")))[] 
[74]
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[]\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par
-i-son[][][] and
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 []\T1/pcr/m/n/9 cat(paste(letters, 100* 1:26), fill = TRUE, labels = paste0("{
", 1:10, "}:"))[] 
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[]\T1/ptm/m/n/10 (generalized) vec-tors or ma-tri-ces. These can be given as na
med ar-gu-
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[]\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu
e and valid
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 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna
mes (default)[] 
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 []\T1/pcr/m/n/9 as.character(list(A = "Abc", xy = c("x", "y"))) # "Abc"  "c(\"
x\", \"y\")"[] 
[83]
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c
har-ac-ter by
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[]\T1/ptm/m/n/10 When a generic func-tion []\T1/pcr/m/n/10 fun []\T1/ptm/m/n/10
 is ap-plied to an ob-ject with class at-tribute []\T1/pcr/m/n/10 c("first",
[92] [93] [94] [95] [96] [97] [98] [99]
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[]\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i
n-tro-duc-tion see [][]$\T1/pcr/m/n/10 https : / /
[100] [101] [102]
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 []\T1/pcr/m/n/9 stopifnot(identical(as.complex(NA_real_), NA_real_ + 0i)) # ha
s always been true[] 
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 []\T1/pcr/m/n/9 NAs <- vapply(list(NA, NA_integer_, NA_real_, NA_character_, N
A_complex_),[] 
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 []\T1/pcr/m/n/9 ## The exact result of this *depends* on the platform, compile
r, math-library:[] 
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 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex
_)), is.na(Im(NA_complex_)))[] 
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[]\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class []\T1/pcr/m/n
/10 interrupt []\T1/ptm/m/n/10 that in-her-its di-rectly from class
[105]
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[]\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. 
They can be es-tab-lished us-ing
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[]\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i
s []\T1/pcr/m/n/10 interactive[]\T1/ptm/m/n/10 . This should
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 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e
ncoding"))[] 
[108]
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[]\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de
fault", "internal",
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[]\T1/pcr/m/n/10 file[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pipe[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 fifo[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 url[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 gzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bzfile[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 xzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 unz[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 ,
[111] [112] [113]
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[]\T1/ptm/m/n/10 It may be pos-si-ble to de-duce the cur-rent na-tive en-cod-in
g from
[114]
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[]\T1/pcr/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/pcr/m/n/10 descri
ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/pcr/m/n/10 "r" []\T1/ptm/m/n
/10 only. This
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\T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http
s : / / specifications . freedesktop .
Underfull \hbox (badness 1735) in paragraph at lines 7730--7737
[]\T1/pcr/m/n/10 "X11_primary" []\T1/ptm/m/n/10 and the sec-ondary se-lec-tion 
as []\T1/pcr/m/n/10 "X11_secondary"[]\T1/ptm/m/n/10 . On most sys-
[115] [116]
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Overfull \hbox (4.38043pt too wide) in paragraph at lines 7976--7976
 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE"))
; close(con)[] 
[118] [119] [120] [121] [122]
Underfull \hbox (badness 10000) in paragraph at lines 8331--8333
[]\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th
e call to
[123] [124] [125]
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 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org")   ## this redirect
s to https://[] 
[126] [127] [128]
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 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng
th.out = 24)[] 
[129] [130]
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[]\T1/pcr/m/n/10 data.frame []\T1/ptm/m/n/10 con-verts each of its ar-gu-ments 
to a data frame by call-ing
Underfull \hbox (badness 1975) in paragraph at lines 8840--8850
[][][]\T1/pcr/m/n/10 as.data.frame[][][](optional = TRUE)[]\T1/ptm/m/n/10 . As 
that is a generic func-tion, meth-ods can be
[131] [132] [133]
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 []                 \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l
ength.out = 3),[] 
[134] [135] [136] [137]
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\T1/pcr/m/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") []\T1/ptm/m
/n/10 may give []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 , and
[138] [139] [140] [141] [142] [143] [144] [145]
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[]\T1/pcr/m/n/10 .Defunct []\T1/ptm/m/n/10 is called from de-funct func-tions. 
Func-tions should be listed in
[146]
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 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]:  --------
-------------[] 
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 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(cos, "y", {cat(" HO
!\n"); pi+2})[] 
[147]
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 []        \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "(
", "function"),[] 
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 []        \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh
owAttributes"),[] 
[148]
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[]\T1/pcr/m/n/10 ..deparseOpts []\T1/ptm/m/n/10 is the [][][]\T1/pcr/m/n/10 cha
racter[][][] []\T1/ptm/m/n/10 vec-tor of pos-si-ble de-pars-ing op-tions used b
y
[149]
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[]\T1/ptm/m/n/10 Surround un-eval-u-ated ex-pres-sions, but not [][][]\T1/pcr/m
/n/10 formula[][][][]\T1/ptm/m/n/10 s, with
[150] [151] [152]
Underfull \hbox (badness 1603) in paragraph at lines 10390--10393
[]\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t
er-mi-nant if
[153] [154] [155] [156] [157] [158]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 10858--10858
 []    \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0
0:01"))[] 
[159] [160] [161]
Underfull \hbox (badness 1917) in paragraph at lines 11022--11027
[]\T1/pcr/m/n/10 provideDimnames(x) []\T1/ptm/m/n/10 pro-vides []\T1/pcr/m/n/10
 dimnames []\T1/ptm/m/n/10 where ``miss-ing'', such that its re-sult has
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 []\T1/pcr/m/n/9 strd(provideDimnames(N, base= list(letters[-(1:9)], tail(LETTE
RS)))) # recycling[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11078--11078
 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling
 on both levels[] 
[162] [163]
Underfull \hbox (badness 1168) in paragraph at lines 11180--11185
[]\T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of []\
T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . Cur-rently this is only used by
[164]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11282--11282
 []\T1/pcr/m/n/9 ## From R 4.1.0 to 4.1.2, ...names() sometimes did not match n
ames(list(...));[] 
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 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()),
 names(list(...))))[] 
[165] [166]
Underfull \hbox (badness 2828) in paragraph at lines 11403--11408
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ 754-[]19
85$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
Underfull \hbox (badness 10000) in paragraph at lines 11403--11408
\T1/pcr/m/n/10 org / wiki / IEEE _ 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr
/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _
Underfull \hbox (badness 10000) in paragraph at lines 11403--11408
\T1/pcr/m/n/10 754-[]2019$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / 
en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/
pcr/m/n/10 https :
[167]
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 []     \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA
ttributes"))[] 
[168]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 11508--11508
 []\T1/pcr/m/n/9 ## Write an ASCII version of the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9
 base\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 function mean() to our temp file, ..[] 
[169]
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 []\T1/pcr/m/n/9 drop(1:3 %*% 2:4)  # scalar product - w/o drop(.), would retur
n 1x1 matrix[] 
[170]
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 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon
th.abb[5:9])) 
[171] [172] [173]
Underfull \hbox (badness 6396) in paragraph at lines 11864--11872
[]\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len
t method def-i-ni-tions for
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[]\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len
t to but faster than
[174] [175] [176]
Underfull \hbox (badness 10000) in paragraph at lines 12090--12093
[]\T1/ptm/m/n/10 Do not use []\T1/pcr/m/n/10 dyn.unload []\T1/ptm/m/n/10 on a D
LL loaded by [][][]\T1/pcr/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 : use
[177] [178] [179] [180] [181] [182]
Underfull \hbox (badness 2744) in paragraph at lines 12533--12535
[]\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma
y lead to con-fu-sion (see
[183]
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 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12
52 loc.) | ....[] 
[184] [185] [186]
Underfull \hbox (badness 5288) in paragraph at lines 12808--12810
[]\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val
ue of
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[]\T1/ptm/m/n/10 Optional. The path to Ghostscript, used by [][][]\T1/pcr/m/n/1
0 dev2bitmap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bitmap[][][] []\T1/pt
m/m/n/10 and
[187]
Underfull \hbox (badness 10000) in paragraph at lines 12875--12878
[]\T1/ptm/m/n/10 The path to HTML []\T1/pcr/m/n/10 tidy[]\T1/ptm/m/n/10 . Used 
by []\T1/pcr/m/n/10 R CMD check []\T1/ptm/m/n/10 if
Underfull \hbox (badness 10000) in paragraph at lines 12893--12895
[]\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for
[188] [189] [190] [191]
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[]\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing []\T1/pc
r/m/n/10 where []\T1/ptm/m/n/10 as
Underfull \hbox (badness 5970) in paragraph at lines 13186--13188
[]\T1/pcr/m/n/10 get0(): []\T1/ptm/m/n/10 The object---as from [][][]\T1/pcr/m/
n/10 get[][][](x, *)[]\T1/ptm/m/n/10 --- if []\T1/pcr/m/n/10 exists(x, *) []\T1
/ptm/m/n/10 is true, oth-er-wise
[192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 14001--14001
 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes.   Could provide 
a constructor[] 
[203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213]
Underfull \hbox (badness 2253) in paragraph at lines 14737--14739
[]\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is
 done: see
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[]\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m
a-tion is given about the
[214] [215]
Underfull \hbox (badness 2573) in paragraph at lines 14905--14907
[]\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/pcr
/m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 R_LIBS []\T1/ptm/m/n/10 with
 []\T1/pcr/m/n/10 fsep =
[216] [217]
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[]\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See
[218] [219]
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[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 unlink[][][][]\T1
/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 15198--15201
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][
] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
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 []                     \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B 
as it exists already[] 
[220]
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 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode
 = "0777")[] 
[221]
Underfull \hbox (badness 10000) in paragraph at lines 15339--15342
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/
m/n/10 unlink[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 basename[][][][]\T1/
ptm/m/n/10 ,
Overfull \hbox (9.78043pt too wide) in paragraph at lines 15349--15349
 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu
rsive = TRUE)[] 
[222]
Underfull \hbox (badness 10000) in paragraph at lines 15415--15418
[]\T1/pcr/m/n/10 packageNotFoundError []\T1/ptm/m/n/10 cre-ates an er-ror con-d
i-tion ob-ject of class
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 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio
ns it is found:[] 
[223]
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 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F
ALSE, 
Underfull \hbox (badness 3965) in paragraph at lines 15493--15497
[]\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr
i-bu-tion func-tion, and in-deed,
[224] [225] [226]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15657--15657
 []       \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING) 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15658--15658
 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING)[] 
[227] [228] [229] [230]
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 []\T1/pcr/m/n/9 ## formals returns a pairlist. Arguments with no default have 
type symbol (aka name).[] 
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 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions.  Use it in co
mbination with[] 
[231]
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[]\T1/ptm/m/n/10 either a log-i-cal spec-i-fy-ing whether el-e-ments of a real 
or com-plex vec-
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\T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger 
penalty (see
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[]\T1/pcr/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 big.interval[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sma
ll.interval[]\T1/ptm/m/n/10 ,
[232]
Underfull \hbox (badness 6944) in paragraph at lines 16084--16087
[][][]\T1/pcr/m/n/10 formatC[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 paste
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 sprintf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p
rint[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 prettyNum[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 toString[][][][]\T1/ptm/m/n/10 ,
[233]
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 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1
0,100,1000),[] 
[234] [235]
Underfull \hbox (badness 10000) in paragraph at lines 16252--16254
[]\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 is used for ``pret-ti-fy-ing'' (p
os-si-bly for-mat-ted) num-bers, also in
Overfull \hbox (48.78088pt too wide) in paragraph at lines 16272--16272
 []          \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = 
decimal.mark,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 16278--16278
 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric
(x)),[] 
Underfull \hbox (badness 2790) in paragraph at lines 16285--16288
[]\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][]
[]\T1/pcr/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for
[236]
Underfull \hbox (badness 1024) in paragraph at lines 16316--16323
[]\T1/pcr/m/n/10 "f" []\T1/ptm/m/n/10 gives num-bers in the usual []\T1/pcr/m/n
/10 xxx.xxx []\T1/ptm/m/n/10 for-mat; []\T1/pcr/m/n/10 "e" []\T1/ptm/m/n/10 and
 []\T1/pcr/m/n/10 "E" []\T1/ptm/m/n/10 give
[237]
Underfull \hbox (badness 10000) in paragraph at lines 16392--16394
[]\T1/ptm/m/n/10 This works via []\T1/pcr/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , 
which calls []\T1/pcr/m/n/10 .format.zeros(*,
Underfull \hbox (badness 10000) in paragraph at lines 16414--16419
[]\T1/ptm/m/n/10 For num-bers, []\T1/pcr/m/n/10 formatC() []\T1/ptm/m/n/10 call
s []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 when needed which it-self calls
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[]\T1/ptm/m/n/10 If you set []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 it over-ri
des the set-ting of []\T1/pcr/m/n/10 mode[]\T1/ptm/m/n/10 , so []\T1/pcr/m/n/10
 formatC(123.45, mode =
Underfull \hbox (badness 10000) in paragraph at lines 16431--16439
[]\T1/pcr/m/n/10 prettyNum []\T1/ptm/m/n/10 is the util-ity func-tion for pret-
ti-fy-ing []\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 x []\T1/ptm/m/n
/10 can be com-plex (or
[238] [239]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 16538--16538
 []\T1/pcr/m/n/9 fc <- formatC(1.234 + 10^(0:8), format = "fg", width = 11, big
.mark = "\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ")[] 
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 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you 
want see the effect[] 
[241] [242]
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 []\T1/pcr/m/n/10 Reduce(f, x, init, right = FALSE, accumulate = FALSE, simplif
y = TRUE) 
[243] [244] [245] [246] [247] [248] [249] [250] [251] [252]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17406--17406
 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil
l a DLLInfoList[] 
[253]
Underfull \hbox (badness 2418) in paragraph at lines 17515--17519
\T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [
]\T1/pcr/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CallRoutine[]\T1/pt
m/m/n/10 ,
Underfull \hbox (badness 6510) in paragraph at lines 17522--17525
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 name []\T1/ptm/m/n/10 con-tains only one s
ym-bol name and []\T1/pcr/m/n/10 unlist []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TR
UE[]\T1/ptm/m/n/10 , then the sin-gle
[254]
Underfull \hbox (badness 2326) in paragraph at lines 17557--17564
[][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 is.loaded[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .C[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Fortran[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 .External[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Call[][][][]
\T1/ptm/m/n/10 ,
[255] [256]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17707--17707
 []\T1/pcr/m/n/9 ## Not run: ## for translation, those strings should appear in
 R-pkg.pot as[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17728--17728
 []\T1/pcr/m/n/9 if(is.na(thisLang) || !nzchar(thisLang)) thisLang <- "en" # "f
actory" default[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 17731--17731
 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if 
translation works)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [257]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 17761--17761
 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex
ample started:[] 
[258]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17898--17898
 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F
ALSE, 
[259]
Underfull \hbox (badness 1867) in paragraph at lines 17926--17933
[]\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][]
[] (or char-ac-ter string for
[260] [261] [262] [263] [264]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18244--18244
 []  \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around 
"checking hack"[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 18273--18273
 []\T1/pcr/m/n/9 name.rex <- "(?<first>[[:upper:]][[:lower:]]+) (?<last>[[:uppe
r:]][[:lower:]]+)"[] 
Underfull \vbox (badness 10000) has occurred while \output is active [265]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 18329--18329
 []        \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F
ALSE)[] 
[266] [267] [268] [269] [270]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18704--18704
 []\T1/pcr/m/n/9 (ii <- grouping(x <- c(1, 1, 3:1, 1:4, 3), y <- c(9, 9:1), z <
- c(2, 1:9))) 
[271]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 18769--18769
 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch
12.dat.gz"))[] 
[272] [273] [274]
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 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F
ALSE) 
[275] [276]
Underfull \hbox (badness 1360) in paragraph at lines 19141--19147
[]\T1/ptm/m/n/10 The most portable name for the ISO 8859-15 en-cod-ing, com-mon
ly known as `Latin 9',
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\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 "iso885915"[]\T1/ptm/m/n/10 : most plat-form
s sup-port both []\T1/pcr/m/n/10 "latin-9" []\T1/ptm/m/n/10 and[]\T1/pcr/m/n/10
 "latin9" []\T1/ptm/m/n/10 but GNU
[277] [278] [279]
Underfull \hbox (badness 1163) in paragraph at lines 19363--19365
[]\T1/ptm/m/n/10 The ICU user guide chap-ter on col-la-tion ([][]$\T1/pcr/m/n/1
0 https : / / unicode-[]org . github . io / icu /
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19371--19371
 []\T1/pcr/m/n/9 ## As we don\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 t know the current s
ettings, we can only reset to the default.[] 
[280]
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 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se
t = TRUE, 
[281]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 19495--19495
 []              \T1/pcr/m/n/10 num.eq = FALSE, single.NA = FALSE, attrib.as.se
t = FALSE,[] 
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 []              \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F
ALSE,[] 
[282]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 19549--19549
 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------
----------------[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 19555--19555
 []\T1/pcr/m/n/9 identical(f, g)                        # TRUE, as bytecode is 
ignored by default[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 19558--19558
 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share
 an environment:[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19564--19564
 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi
ng "srcref" :[] 
[283] [284]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 19691--19691
 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u
se ifelse(),[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19699--19699
 []\T1/pcr/m/n/9 ## example of different return modes (and \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 test\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 alone determining length):[] 
[285] [286] [287]
Underfull \hbox (badness 10000) in paragraph at lines 19904--19906
[]\T1/ptm/m/n/10 how some er-rors are han-dled and re-ported, e.g. see [][][]\T
1/pcr/m/n/10 stop[][][] []\T1/ptm/m/n/10 and
[288]
Underfull \hbox (badness 2057) in paragraph at lines 20007--20033
[][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.double[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.raw[][][][]
\T1/ptm/m/n/10 ,
[289] [290] [291]
Underfull \hbox (badness 10000) in paragraph at lines 20205--20213
\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle
 . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[292] [293] [294]
Underfull \hbox (badness 4699) in paragraph at lines 20405--20408
[]\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty
pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 ,
[295] [296]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20537--20537
 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = "
GMT")[] 
[297] [298]
Underfull \hbox (badness 4739) in paragraph at lines 20672--20674
[]\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere
d, see
[299]
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 []\T1/pcr/m/n/9 isSymmetric(D3)                         # FALSE (as row and co
lumn names differ)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 20722--20722
 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE  (as names are 
not checked)[] 
[300] [301]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 20837--20837
 []\T1/pcr/m/n/10 .kappa_tri(z, exact = FALSE, LINPACK = TRUE, norm = NULL, upl
o = "U", ...)[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 20839--20839
 []\T1/pcr/m/n/10 rcond(x, norm = c("O","I","1"), triangular = FALSE, uplo = "U
", ...)[] 
[302]
Underfull \hbox (badness 2961) in paragraph at lines 20923--20926
[]\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n
etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / /
[303]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20979--20979
 []\T1/pcr/m/n/9 ## Moore-Penrose inverse { ~= MASS::ginv(); differing tol (val
ue & meaning)}:[] 
[304]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 21001--21001
 []\T1/pcr/m/n/9 try( kappa(m76, exact=TRUE, norm="1") )# error in  solve().. m
ust be square[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 21003--21003
 []\T1/pcr/m/n/9 ## ==> use pseudo-inverse instead of solve() for rectangular {
and norm != "2"}:[] 
[305] [306] [307] [308] [309] [310]
Underfull \hbox (badness 1975) in paragraph at lines 21414--21417
[]\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p
hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to
[311] [312] [313] [314] [315] [316]
Underfull \hbox (badness 1077) in paragraph at lines 21830--21835
[]\T1/ptm/m/n/10 In late 2017 a []\T1/pcr/m/n/10 libcurl []\T1/ptm/m/n/10 in-st
al-la-tion was seen di-vided into two li-braries, []\T1/pcr/m/n/10 libcurl []\T
1/ptm/m/n/10 and
Underfull \hbox (badness 10000) in paragraph at lines 21844--21851
[][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p
tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs /
[317]
Underfull \hbox (badness 1112) in paragraph at lines 21917--21926
[]\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the
 en-vi-ron-ment vari-ables []\T1/pcr/m/n/10 R_LIBS[]\T1/ptm/m/n/10 ,
[318]
Underfull \hbox (badness 2970) in paragraph at lines 21975--21978
[]\T1/pcr/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/pcr/m/n/10 C:\Us
ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a
Underfull \hbox (badness 2951) in paragraph at lines 21975--21978
\T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It 
may be opened by
[319] [320]
Underfull \hbox (badness 10000) in paragraph at lines 22088--22092
[]\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use
Underfull \hbox (badness 1454) in paragraph at lines 22088--22092
[][][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][][]\T1/ptm/m/n/10 : thi
s will sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self
Underfull \hbox (badness 1221) in paragraph at lines 22093--22100
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 is called with no
 []\T1/pcr/m/n/10 package []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 help []\T1/ptm/m
/n/10 ar-gu-ment, it lists all avail-able pack-
[321] [322]
Underfull \hbox (badness 10000) in paragraph at lines 22222--22229
[][][]\T1/pcr/m/n/10 attach[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 detach
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 search[][][][]\T1/ptm/m/n/10 , []
[][]\T1/pcr/m/n/10 objects[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 autoloa
d[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 requireNamespace[][][][]\T1/ptm/
m/n/10 ,
[323]
Underfull \hbox (badness 10000) in paragraph at lines 22343--22347
[]\T1/ptm/m/n/10 Do not use [][][]\T1/pcr/m/n/10 dyn.unload[][][] []\T1/ptm/m/n
/10 on a DLL loaded by []\T1/pcr/m/n/10 library.dynam[]\T1/ptm/m/n/10 : use
[324] [325] [326] [327]
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
[328]
Underfull \hbox (badness 3343) in paragraph at lines 22646--22650
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/
m/n/10 for many more file han-dling func-tions and
[329] [330]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 22784--22784
 []          \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments 
as for lists[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 22795--22795
 []              \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1,
 prob = 0.2))),[] 
[331] [332]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 22906--22906
 []\T1/pcr/m/n/9 ## This however annihilates all objects in .GlobalEnv with the
 same names ![] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 22909--22909
 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w
/ same name in .GlobalEnv[] 
Underfull \hbox (badness 6380) in paragraph at lines 22956--22964
[]\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways 
be sup-
[333] [334]
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[]\T1/ptm/m/n/10 Almost all the out-put rou-tines used by \T1/phv/m/n/10 R \T1/
ptm/m/n/10 it-self un-der Win-dows ig-nore the set-ting of
Overfull \hbox (4.38043pt too wide) in paragraph at lines 23101--23101
 []\T1/pcr/m/n/9 Sys.setlocale("LC_TIME", "de_DE.UTF-8")  # Linux, macOS, other
 Unix-alikes[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 23105--23105
 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # in C_TIME locale \T
S1/pcr/m/n/9 '\T1/pcr/m/n/9 cT\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 ; typically German
[] 
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 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # "standard" (still p
latform specific ?)[] 
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 []\T1/pcr/m/n/9 ## Not run: Sys.setlocale("LC_COLLATE", "C")   # turn off loca
le-specific sorting,[] 
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 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war
ning messages[] 
[335] [336] [337]
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[][][]\T1/pcr/m/n/10 raw[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logical[]
[][] []\T1/ptm/m/n/10 or `number-like' vec-tors (i.e., of types [][][]\T1/pcr/m
/n/10 double[][][] []\T1/ptm/m/n/10 (class
[338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 24143--24143
 []\T1/pcr/m/n/9 zN <- c(complex(real = NA , imaginary =  r ), complex(real =  
r , imaginary = NA ),[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 24144--24144
 []        \T1/pcr/m/n/9 complex(real =  r , imaginary = NaN), complex(real = N
aN, imaginary =  r ))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 24147--24147
 []\T1/pcr/m/n/9 zM ##--> many "NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s" (= 1) and th
e four non-NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s (3 different ones, at 7,9,10)[] 
[350] [351]
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 []\T1/pcr/m/n/9 match.arg(c("a", ""),  c("", NA, "bb", "abc"), several.ok=TRUE
) # |-->  "abc"[] 
Underfull \hbox (badness 1655) in paragraph at lines 24278--24282
[]\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion 
(also known as a `clo-sure'):
[352] [353] [354] [355]
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[]\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross \T1/ptm/m/n/10 prod-ucts, []
[][]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcro
ssprod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able.
[356] [357] [358] [359] [360] [361] [362] [363] [364]
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[]\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less 
the OS's de-fault has been
Underfull \hbox (badness 1152) in paragraph at lines 25150--25158
\T1/ptm/m/n/10 changed to al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 http
s : / / docs . microsoft . com / en-[]gb /
[365] [366]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 25224--25224
 []      \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y =
 all,[] 
[367] [368] [369] [370] [371] [372] [373] [374]
Underfull \hbox (badness 1448) in paragraph at lines 25775--25783
[]\T1/pcr/m/n/10 anyNA(recursive = FALSE) []\T1/ptm/m/n/10 works the same way a
s []\T1/pcr/m/n/10 is.na[]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 anyNA(recursive =
[375]
Underfull \hbox (badness 3849) in paragraph at lines 25890--25895
[]\T1/pcr/m/n/10 as.name []\T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter-
nally to a char-ac-ter vec-tor (so meth-ods for
[376]
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[]\T1/ptm/m/n/10 For an [][][]\T1/pcr/m/n/10 environment[][][] env[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r
e-spond-ing list,
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\T1/ptm/m/n/10 i.e., []\T1/pcr/m/n/10 names(as.list(env, all.names = TRUE)) []\
T1/ptm/m/n/10 which are also given by [][][]\T1/pcr/m/n/10 ls[][][](env,
Underfull \hbox (badness 3148) in paragraph at lines 25967--25973
\T1/pcr/m/n/10 all.names = TRUE, sorted = FALSE)[]\T1/ptm/m/n/10 . If the en-vi
-ron-ment is used as a hash ta-ble,
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[]\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1
0 c("bytes", "chars",
[380] [381] [382]
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[]\T1/ptm/m/n/10 optional [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 e
ven-tu-ally to be passed to []\T1/pcr/m/n/10 print()[]\T1/ptm/m/n/10 , used by
[383] [384] [385]
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\T1/ptm/m/n/10 tion []\T1/pcr/m/n/10 GetFinalPathNameByHandle []\T1/ptm/m/n/10 
and in case of an er-ror (such as in-suf-fi-cient per-
[386] [387] [388] [389]
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[]\T1/ptm/m/n/10 Loading a names-pace should where pos-si-ble be silent, with s
tartup mes-sages given by
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[]\T1/pcr/m/n/10 .onAttach[]\T1/ptm/m/n/10 . These mes-sages (and any es-sen-ti
al ones from []\T1/pcr/m/n/10 .onLoad[]\T1/ptm/m/n/10 ) should use
[390]
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[]\T1/ptm/m/n/10 Uses of []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 with ar-gu-m
ent []\T1/pcr/m/n/10 help []\T1/ptm/m/n/10 to dis-play ba-sic in-for-ma-tion ab
out the pack-
Underfull \hbox (badness 1990) in paragraph at lines 26877--26881
\T1/ptm/m/n/10 age should use []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 on the c
om-puted pack-age in-for-ma-tion ob-ject and pass this to
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 []\T1/pcr/m/n/10 attachNamespace(ns, pos = 2L, depends = NULL, exclude, includ
e.only) 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 26923--26923
 []              \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk
gs"))[] 
[391]
Underfull \hbox (badness 10000) in paragraph at lines 26972--26978
[]\T1/pcr/m/n/10 loadNamespace []\T1/ptm/m/n/10 does not at-tach the name space
 it loads to the search path.
Underfull \hbox (badness 1168) in paragraph at lines 26972--26978
[]\T1/pcr/m/n/10 attachNamespace []\T1/ptm/m/n/10 can be used to at-tach a fram
e con-tain-ing the ex-ported val-ues of a
Underfull \hbox (badness 10000) in paragraph at lines 26985--26987
[]\T1/pcr/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but
 more ef-fi-cient than []\T1/pcr/m/n/10 pkg %in%
[392]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27052--27052
 [] \T1/pcr/m/n/9 ## The string "foo" and the symbol \TS1/pcr/m/n/9 '\T1/pcr/m/
n/9 foo\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 can be used interchangably here:[] 
[393] [394] [395]
Underfull \hbox (badness 8189) in paragraph at lines 27251--27257
[]\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 is.numeric []\T1/ptm/
m/n/10 re-turns []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 if its ar-gu-ment is of 
[][]mode[][][]
[396] [397] [398]
Underfull \hbox (badness 2591) in paragraph at lines 27476--27484
\T1/ptm/m/n/10 ject as ob-tained by [][][]\T1/pcr/m/n/10 R.version[][][][]\T1/p
tm/m/n/10 . For []\T1/pcr/m/n/10 as.numeric_version []\T1/ptm/m/n/10 and
[399] [400] [401] [402] [403]
Underfull \hbox (badness 1603) in paragraph at lines 27762--27764
[]\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a
re con-verted by
[404]
Underfull \hbox (badness 1210) in paragraph at lines 27896--27905
[]\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/
10 R \T1/ptm/m/n/10 starts up. Ini-
[405] [406] [407]
Underfull \hbox (badness 3271) in paragraph at lines 28117--28120
[]\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men
t vari-able
[408] [409] [410]
Underfull \hbox (badness 3138) in paragraph at lines 28425--28431
[]\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/pcr/
m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 28425--28431
\T1/ptm/m/n/10 e.g. the de-fault `[]\T1/pcr/m/n/10 "https://bioconductor.org"[]
\T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror
Underfull \hbox (badness 2088) in paragraph at lines 28425--28431
\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 "https://bioconductor.statistik.tu-dortmund.de
"[]\T1/ptm/m/n/10 '. Can be set by
Underfull \hbox (badness 1389) in paragraph at lines 28464--28466
[]\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na
l HTTP server, see
[411]
Underfull \hbox (badness 10000) in paragraph at lines 28495--28501
[]\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by
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[]\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/
m/n/10 (and in-di-rectly
Underfull \hbox (badness 1009) in paragraph at lines 28528--28531
[]\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/pcr/m/n/10 create.p
ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/pcr/m/n/10 bug.report[][][] []\T
1/ptm/m/n/10 and
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[]\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle
d -- see
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[]\T1/pcr/m/n/10 "source" []\T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN 
ma-cOS
Underfull \hbox (badness 10000) in paragraph at lines 28552--28558
\T1/ptm/m/n/10 build), []\T1/pcr/m/n/10 "mac.binary" []\T1/ptm/m/n/10 and []\T1
/pcr/m/n/10 "both" []\T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS
Underfull \hbox (badness 10000) in paragraph at lines 28552--28558
\T1/ptm/m/n/10 builds). ([]\T1/pcr/m/n/10 "mac.binary.el-capitan"[]\T1/ptm/m/n/
10 , []\T1/pcr/m/n/10 "mac.binary.mavericks"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 5091) in paragraph at lines 28552--28558
[]\T1/pcr/m/n/10 "mac.binary.leopard" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "ma
c.binary.universal" []\T1/ptm/m/n/10 are no longer
[412] [413]
Underfull \vbox (badness 10000) has occurred while \output is active [414]
[415] [416]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28933--28933
 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec,
 300X faster[] 
Underfull \vbox (badness 10000) has occurred while \output is active [417]
Underfull \hbox (badness 10000) in paragraph at lines 28946--28950
[]\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex.
y)] = FUN(X[arrayindex.x],
[418] [419]
Underfull \hbox (badness 1210) in paragraph at lines 29093--29096
[]\T1/pcr/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 str2la
ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/pcr/m/n/10 parse(tex
t=s,
[420] [421]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 29288--29288
 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) 
"Syntax error.")[] 
[422]
Underfull \hbox (badness 1478) in paragraph at lines 29318--29323
\T1/ptm/m/n/10 zero-length [][][]\T1/pcr/m/n/10 character[][][](0)[]\T1/ptm/m/n
/10 . Note that when []\T1/pcr/m/n/10 collapse []\T1/ptm/m/n/10 is a string,
[423]
Underfull \hbox (badness 7133) in paragraph at lines 29377--29383
[][][]\T1/pcr/m/n/10 toString[][][] []\T1/ptm/m/n/10 typ-i-cally calls []\T1/pc
r/m/n/10 paste(*, collapse=", ")[]\T1/ptm/m/n/10 . String ma-nip-u-la-tion with
Overfull \hbox (42.18039pt too wide) in paragraph at lines 29399--29399
 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as
 the longest input.[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 29411--29411
 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha
t you wanted[] 
Overfull \hbox (17.87582pt too wide) in paragraph at lines 29424--29424
 []\T1/pcr/m/n/9 ## zero length arguments recycled as \TS1/cmtt/m/n/9 `\T1/pcr/
m/n/9 ""\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 -- NB: \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 {
}\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 <==> character(0)  here[] 
[424]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 29427--29427
 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 recycle0 = TRUE\TS1/pcr/m/n/9
 ' \T1/pcr/m/n/9 allows standard vectorized behaviour, i.e., zero-length[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 29428--29428
 []\T1/pcr/m/n/9 ##                   recycling resulting in zero-length result
 character(0):[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 29431--29431
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- not so good!") # ->  "..
 value is  -- not .."[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 29432--29432
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0=
TRUE) # -> character(0)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 29435--29435
 []\T1/pcr/m/n/9 paste("foo", {}, "bar", collapse = "|")                  # |--
>  "foo  bar"[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 29437--29437
 []\T1/pcr/m/n/9 ## If all arguments are empty (and collapse a string),   ""  r
esults always[] 
[425] [426] [427]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 29624--29624
 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow()  # same as nrow(subset(mt
cars, cyl == 4))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 29642--29642
 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so 
is not evaluated[] 
[428]
Underfull \hbox (badness 1360) in paragraph at lines 29697--29701
[]\T1/ptm/m/n/10 All other []\T1/pcr/m/n/10 type[]\T1/ptm/m/n/10 s give a warn-
ing or an er-ror; us-ing, e.g., []\T1/pcr/m/n/10 type =
[429] [430] [431] [432]
Underfull \hbox (badness 2277) in paragraph at lines 30009--30014
\T1/ptm/m/n/10 i.e., strictly in-clude the bounds of []\T1/pcr/m/n/10 x[]\T1/pt
m/m/n/10 . New from \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0, al-low-ing
[433] [434]
Underfull \hbox (badness 1701) in paragraph at lines 30125--30129
[]\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/cmtt/m/n/10 `\T1/
pcr/m/n/10 name\TS1/cmtt/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\
T1/pcr/m/n/10 get[][][](name, envir =
[435]
Underfull \hbox (badness 1796) in paragraph at lines 30193--30196
[]\T1/ptm/m/n/10 character string (or []\T1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 ) i
n-di-cat-ing [][][]\T1/pcr/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed 
out-put, see
[436] [437] [438] [439]
Underfull \hbox (badness 10000) in paragraph at lines 30404--30407
[]\T1/ptm/m/n/10 Option []\T1/pcr/m/n/10 width []\T1/ptm/m/n/10 con-trols the p
rint-ing of vec-tors, ma-tri-ces and ar-rays, and op-tion
[440]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 30475--30475
 []\T1/pcr/m/n/9 (x <- 2^seq(-8, 30, by=1/4)) # auto-prints; by default all in 
"exponential" format[] 
[441] [442] [443] [444] [445] [446] [447]
Underfull \hbox (badness 2961) in paragraph at lines 30956--30959
[]\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n
etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / /
[448] [449]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 31105--31105
 []           \T1/pcr/m/n/9 c1 = rep(c(1,0,0), 2), c2 = rep(c(0,1,0), 2), c3 = 
rep(c(0,0,1),2))[] 
[450] [451] [452] [453]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 31398--31398
 []\T1/pcr/m/n/9 (nn <- "\u0126\u0119\u1114\u022d\u2001\u03e2\u0954\u0f3f\u13d3
\u147b\u203c")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 31409--31409
 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\
U147b\U203c"[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 31415--31415
 []\T1/pcr/m/n/9 ## https://cran.r-project.org/doc/manuals/r-release/R-lang.htm
l#Literal-constants[] 
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 []\T1/pcr/m/n/9 ## nul characters (for terminating strings in C) are not allow
ed (parse errors)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [454]
[455]
Underfull \hbox (badness 7415) in paragraph at lines 31518--31524
[]\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R.v
ersion$os []\T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use
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 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu
l bottom-right note[] 
[456]
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 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind =
 NULL)[] 
[457] [458]
Underfull \hbox (badness 3713) in paragraph at lines 31731--31742
[]\T1/pcr/m/n/10 normal.kind []\T1/ptm/m/n/10 can be []\T1/pcr/m/n/10 "Kinderma
n-Ramage"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Buggy Kinderman-Ramage" []\T1/ptm
/m/n/10 (not
[459]
Underfull \hbox (badness 1248) in paragraph at lines 31883--31890
\T1/ptm/m/n/10 uni-form pseudo-random num-ber gen-er-a-tor, \T1/ptm/m/it/10 ACM
 Trans-ac-tions on Mod-el-ing and Com-puter
Underfull \hbox (badness 10000) in paragraph at lines 31883--31890
\T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 http : / / www . math . sci . hirosh
ima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS /
[460] [461]
Underfull \hbox (badness 1533) in paragraph at lines 32001--32004
[]\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca
n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the
[462] [463] [464]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 32154--32154
 []     \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m
ax", "min"))[] 
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[]\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/pcr/m/n/10 N
A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in
[465] [466]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32316--32316
 []\T1/pcr/m/n/9 rapply(X, function(x) x, how = "replace") -> X.; stopifnot(ide
ntical(X, X.))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 32318--32318
 []\T1/pcr/m/n/9 rapply(X, deparse, control = "all") # passing extras. argument
 of deparse()[] 
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 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h
ow = "list")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32320--32320
 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32321--32321
 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character",                      h
ow = "unlist")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32328--32328
 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
[467] [468] [469] [470] [471]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 32636--32636
 []\T1/pcr/m/n/9 ## Bit representation  [ sign | exponent | mantissa ] of doubl
e prec numbers :[] 
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 []\T1/pcr/m/n/9 bitC <- function(x) noquote(vapply(as.double(x), function(x) {
 # split one double[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 32648--32648
 []\T1/pcr/m/n/9 d2bI <- function(x) vapply(as.double(x), function(x) intToBits
(numToInts(x)), raw(64L))[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 32649--32649
 []\T1/pcr/m/n/9 d2b  <- function(x) vapply(as.double(x), function(x)          
 numToBits(x) , raw(64L))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [472]
Underfull \hbox (badness 6300) in paragraph at lines 32718--32720
[]\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr
it-ing R Ex-ten-sions' man-ual:
[473]
Underfull \hbox (badness 4048) in paragraph at lines 32744--32749
[]\T1/ptm/m/n/10 Either an ob-ject whose mode will give the mode of the vec-tor
 to
Underfull \hbox (badness 4582) in paragraph at lines 32744--32749
\T1/ptm/m/n/10 be read, or a char-ac-ter vec-tor of length one de-scrib-ing the
 mode:
Underfull \hbox (badness 1824) in paragraph at lines 32744--32749
\T1/ptm/m/n/10 one of []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/pcr/m/
n/10 "double"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 "int"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/
10 ,
[474] [475] [476] [477] [478] [479] [480] [481]
Underfull \hbox (badness 2080) in paragraph at lines 33285--33295
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 infoRDS[]\T1/ptm/m/n/10 , an \T1/phv/m/n/
10 R \T1/ptm/m/n/10 list with el-e-ments []\T1/pcr/m/n/10 version []\T1/ptm/m/n
/10 (ver-sion num-ber, cur-rently 2 or 3),
Overfull \hbox (4.38043pt too wide) in paragraph at lines 33319--33319
 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene
d as needed.[] 
[482] [483] [484] [485] [486] [487] [488]
Underfull \hbox (badness 7558) in paragraph at lines 33841--33845
[]\T1/pcr/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 gregexpr []\T1/p
tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g.,
Underfull \hbox (badness 1968) in paragraph at lines 33851--33853
[]\T1/ptm/m/n/10 This help page is based on the TRE doc-u-men-ta-tion and the P
OSIX stan-dard, and the
[489]
Underfull \hbox (badness 10000) in paragraph at lines 33862--33864
[]\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/pcr/m/n/10 https : / / 
pubs . opengroup . org / onlinepubs /
Underfull \hbox (badness 1975) in paragraph at lines 33865--33869
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/pc
r/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/pcr/m
/n/10 https : / / www .
[490] [491] [492] [493] [494]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 34237--34237
 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3)         # length 24, 3 complete 
replications[] 
[495]
Underfull \hbox (badness 10000) in paragraph at lines 34308--34312
[][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] []
[]NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple
x_[][][]
[496] [497] [498]
Underfull \hbox (badness 2302) in paragraph at lines 34541--34544
[]\T1/pcr/m/n/10 signif []\T1/ptm/m/n/10 rounds the val-ues in its first ar-gu-
ment to the spec-i-fied num-ber of \T1/ptm/m/it/10 sig-nif-i-cant
Underfull \hbox (badness 1824) in paragraph at lines 34541--34544
\T1/ptm/m/n/10 dig-its. Hence, for []\T1/pcr/m/n/10 numeric x[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 signif(x, dig) []\T1/ptm/m/n/10 is the same as []\T1/pcr/m/n/
10 round(x, dig -
[499] [500]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 34671--34671
 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"))[] 
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 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
[501]
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 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
[502] [503] [504] [505] [506] [507]
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 []           \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) 
&& size <= n/2))[] 
[508] [509] [510] [511] [512] [513] [514]
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 []     \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul =
 FALSE)[] 
[515]
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[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 
1, it ap-plies to all fields; oth-er-wise, if
[516] [517]
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 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data
", sep = "\n") 
[518] [519] [520] [521]
Underfull \hbox (badness 4752) in paragraph at lines 36115--36118
[]\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence []\T1/pcr/
m/n/10 1, 2, ..., length(along.with)[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 5563) in paragraph at lines 36119--36125
[]\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence []\T1/pcr/m/n/10 1, 2
, ..., length(from) []\T1/ptm/m/n/10 (as if ar-gu-ment
[522] [523] [524] [525] [526] [527] [528] [529] [530]
Underfull \hbox (badness 6094) in paragraph at lines 36705--36709
[]\T1/pcr/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in-
te-ger con-nec-tion de-scrip-tors for use
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\T1/ptm/m/n/10 with []\T1/pcr/m/n/10 getConnection[]\T1/ptm/m/n/10 , cor-re-spo
nd-ing to the row names of the ta-ble re-turned by
[531]
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[]\T1/ptm/m/n/10 In Win-dows, com-mand line in-ter-pre-ta-tion is done by the a
p-pli-ca-tion as well as the
Underfull \hbox (badness 3492) in paragraph at lines 36796--36807
\T1/ptm/m/n/10 shell. It may de-pend on the com-piler used: Mi-crosoft's rules 
for the C run-time
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\T1/ptm/m/n/10 are given at [][]$\T1/pcr/m/n/10 https : / / learn . microsoft .
 com / en-[]us / cpp / c-[]language /
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\T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][
]\T1/ptm/m/n/10 . It may de-pend on the
[532] [533] [534] [535] [536] [537] [538] [539]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 37348--37348
 []         \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index
.return = FALSE)[] 
[540] [541] [542] [543]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 37639--37639
 []\T1/pcr/m/n/9 sort_by.data.frame(mtcars, ~ list(am, -mpg)) |> subset(select 
= c(am, mpg))[] 
[544]
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 []              \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length 
= Inf,[] 
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 []              \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes"
, "keepNA"),[] 
[545]
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[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/
pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T
1/ptm/m/n/10 , see also
Underfull \hbox (badness 5050) in paragraph at lines 37723--37729
[][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \
T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to
[546]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 37831--37831
 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments
 should print:)[] 
[547] [548] [549] [550] [551]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 38187--38187
 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m
/n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] 
[552]
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 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is
 being added[] 
[553] [554]
Underfull \hbox (badness 10000) in paragraph at lines 38428--38430
[][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919
799 / functions /
[555] [556] [557] [558]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 38654--38654
 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un
known") 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 38655--38655
 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile =
 FALSE)[] 
[559] [560] [561] [562]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 38985--38985
 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS
E, nowadays often three 
[563] [564]
Underfull \hbox (badness 6110) in paragraph at lines 39081--39091
[]\T1/ptm/m/n/10 A func-tion []\T1/pcr/m/n/10 .First []\T1/ptm/m/n/10 (and [][]
[]\T1/pcr/m/n/10 .Last[][][][]\T1/ptm/m/n/10 ) can be de-fined in ap-pro-pri-at
e `\T1/pcr/m/n/10 .Rprofile\T1/ptm/m/n/10 ' or
Underfull \hbox (badness 2635) in paragraph at lines 39081--39091
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' files or have been
 saved in `\T1/pcr/m/n/10 .RData\T1/ptm/m/n/10 '. If you want a dif-fer-ent
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\T1/ptm/m/n/10 set of pack-ages than the de-fault ones when you start, in-sert 
a call to [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 in the
Underfull \hbox (badness 1231) in paragraph at lines 39081--39091
\T1/pcr/m/n/10 = character()) []\T1/ptm/m/n/10 will at-tach no ex-tra pack-ages
 on startup (only the \T1/ptm/b/n/10 base \T1/ptm/m/n/10 pack-age) (or
Underfull \hbox (badness 1112) in paragraph at lines 39081--39091
\T1/ptm/m/n/10 set []\T1/pcr/m/n/10 R_DEFAULT_PACKAGES=NULL []\T1/ptm/m/n/10 as
 an en-vi-ron-ment vari-able be-fore run-ning \T1/phv/m/n/10 R\T1/ptm/m/n/10 ).
 Us-ing
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[]\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file
s `\T1/pcr/m/n/10 Renviron.site\T1/ptm/m/n/10 '
Underfull \hbox (badness 10000) in paragraph at lines 39137--39143
\T1/ptm/m/n/10 and `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for
 first in architecture-specific di-rec-to-ries,
Underfull \hbox (badness 1496) in paragraph at lines 39137--39143
\T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/i386/R
environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/pcr/m/n/10 .Renviron.i386\T1/ptm/m/
n/10 ' will be
[565]
Underfull \hbox (badness 1460) in paragraph at lines 39152--39159
[]\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is 
also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/Renviron\T1/pt
m/m/n/10 ' which is read
Underfull \hbox (badness 1038) in paragraph at lines 39152--39159
\T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron-
ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the
Underfull \hbox (badness 2573) in paragraph at lines 39152--39159
\T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i
n site or user en-vi-ron-ment
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 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba
ckslashes in[] 
[566] [567]
Underfull \hbox (badness 5985) in paragraph at lines 39299--39302
[]\T1/ptm/m/n/10 The de-fault han-dler stores the er-ror mes-sage in a buffer; 
it can be re-trieved by
Underfull \hbox (badness 1460) in paragraph at lines 39299--39302
[]\T1/pcr/m/n/10 geterrmessage()[]\T1/ptm/m/n/10 . It also stores a trace of th
e call stack that can be re-trieved by
[568]
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[]\T1/ptm/m/n/10 alternative to []\T1/pcr/m/n/10 exprs []\T1/ptm/m/n/10 or []\T
1/pcr/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an
[569]
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 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e
xprs = exprs))) 
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 []\T1/pcr/m/n/9 stopifnot(all.equal(pi, 3.141593),  2 < 2, (1:10 < 12), "a" < 
"b") |> try()[] 
[570]
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 []\T1/pcr/m/n/9 stopifnot(all.equal(rep(list(pi),4), list(3.1, 3.14, 3.141, 3.
1415))) |> try()[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 39497--39497
 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 '   \T1/pcr/m/n/9 {Yes, learn how to use do.c
all(substitute, ...) in a powerful manner !!}[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 39499--39499
 []\T1/pcr/m/n/9 bdy        <- do.call(substitute, list(bdy,   list(stopifnot =
 quote(warnifnot))))[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 39500--39500
 []\T1/pcr/m/n/9 bdy[[N-1]] <- do.call(substitute, list(bdy[[N-1]], list(stop =
 quote(warning))))[] 
[571]
Underfull \hbox (badness 1436) in paragraph at lines 39560--39564
[]\T1/ptm/m/n/10 integer de-ter-min-ing the []\T1/pcr/m/n/10 format()[]\T1/ptm/
m/n/10 ing of sec-onds when needed. Note
[572] [573] [574] [575] [576]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 39951--39951
 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec 
= NULL ("= 0")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 39980--39980
 []\T1/pcr/m/n/9 format(s1 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 19
78-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 day
\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ,   len =  7), "%a")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 39981--39981
 []\T1/pcr/m/n/9 format(s2 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 20
00-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 mon
th\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 12), "%b")[] 
Underfull \vbox (badness 10000) has occurred while \output is active [577]
[578]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 40093--40093
 []            \T1/pcr/m/n/10 add the string to the left of the match to the ou
tput.[] 
[579] [580] [581] [582]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 40363--40363
 []        \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p
refix)[] 
[583]
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 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll
apse = "\n")[] 
[584] [585] [586] [587] [588] [589] [590]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 40854--40854
 []\T1/pcr/m/n/9 ## In fact, you can pass vectors into several arguments, and e
verything gets added.[] 
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 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also
 missing, ....[] 
[591]
Underfull \hbox (badness 10000) in paragraph at lines 40908--40915
[]\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][][]\T1/pcr/m/n/
10 signif[][][]() []\T1/ptm/m/n/10 (for
Underfull \hbox (badness 10000) in paragraph at lines 40908--40915
[]\T1/pcr/m/n/10 summary.default[]\T1/ptm/m/n/10 ) or [][][]\T1/pcr/m/n/10 form
at[][][]() []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 summary.data.frame[]\T1/ptm/m
/n/10 ).
[592]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 40961--40961
 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau
lt precision 
[593] [594] [595] [596]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 41275--41275
 []    \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw
ise: last"),"\n")[] 
[597] [598] [599] [600]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 41485--41485
 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, 
macOS, FreeBSD:[] 
Underfull \hbox (badness 2293) in paragraph at lines 41515--41521
[]\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild
-cards in file paths. For pre-cise de-
Underfull \hbox (badness 1237) in paragraph at lines 41515--41521
\T1/ptm/m/n/10 tails of wild-cards ex-pan-sion, see your sys-tem's doc-u-men-ta
-tion on the []\T1/pcr/m/n/10 glob []\T1/ptm/m/n/10 sys-tem call.
[601]
Underfull \hbox (badness 4792) in paragraph at lines 41533--41538
[]\T1/ptm/m/n/10 If a file-name starts with []\T1/pcr/m/n/10 . []\T1/ptm/m/n/10
 this may need to be matched ex-plic-itly: for ex-am-ple
Underfull \hbox (badness 1107) in paragraph at lines 41533--41538
[]\T1/pcr/m/n/10 Sys.glob("*.RData") []\T1/ptm/m/n/10 may or may not match `\T1
/pcr/m/n/10 .RData\T1/ptm/m/n/10 ' but will not usu-ally match
[602] [603] [604] [605]
Underfull \hbox (badness 10000) in paragraph at lines 41821--41825
[]\T1/pcr/m/n/10 sys.status() []\T1/ptm/m/n/10 re-turns a list with com-po-nent
s []\T1/pcr/m/n/10 sys.calls[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sys.parents []\
T1/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 sys.call []\T1/ptm/m/n/10 re-turns a call, []\T1/pcr/m/n/10 sy
s.function []\T1/ptm/m/n/10 a func-tion def-i-ni-tion, and []\T1/pcr/m/n/10 sys
.frame []\T1/ptm/m/n/10 and
[606] [607]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 41974--41974
 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths
), keepNA=TRUE))[] 
[608]
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 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123))  # \TS1/cmtt
/m/n/9 `\T1/pcr/m/n/9 A+C\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 could also be used 
[609] [610] [611]
Underfull \hbox (badness 1082) in paragraph at lines 42199--42202
[]\T1/ptm/m/n/10 logical. If []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions
 keep their source in-clud-ing com-ments, see
Underfull \hbox (badness 10000) in paragraph at lines 42226--42228
[][][]\T1/pcr/m/n/10 source[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 lo
adNamespace[][][] []\T1/ptm/m/n/10 which is called from [][][]\T1/pcr/m/n/10 li
brary[][][](.) []\T1/ptm/m/n/10 and uses
[612] [613] [614]
Underfull \hbox (badness 1038) in paragraph at lines 42393--42396
[]\T1/ptm/m/n/10 a log-i-cal (not []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 ) in-di-c
at-ing whether mes-sages writ-ten to `\T1/pcr/m/n/10 stdout\T1/ptm/m/n/10 ' or
[615] [616] [617] [618] [619] [620]
Underfull \hbox (badness 1442) in paragraph at lines 42777--42781
\T1/ptm/m/n/10 con-sider it to be piped or redi-rected: []\T1/pcr/m/n/10 stdout
 = TRUE []\T1/ptm/m/n/10 uses a pipe whereas []\T1/pcr/m/n/10 stdout =
[621] [622] [623]
Underfull \hbox (badness 4096) in paragraph at lines 43035--43038
[]\T1/ptm/m/n/10 Use [][][]\T1/pcr/m/n/10 ftable[][][] []\T1/ptm/m/n/10 for pri
nt-ing (and more) of mul-ti-di-men-sional ta-bles. [][][]\T1/pcr/m/n/10 margin.
table[][][][]\T1/ptm/m/n/10 ,
[624] [625]
Underfull \hbox (badness 7888) in paragraph at lines 43150--43154
[]\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/pcr/m/n/10 bin []\T1/ptm/m/n/10 can
 have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/pcr/
m/n/10 length(bin) >
[626] [627] [628] [629]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 43412--43412
 []            \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1"
, "2"), c("A", "B")))),[] 
Overfull \hbox (30.0281pt too wide) in paragraph at lines 43414--43414
 []            \T1/pcr/m/n/9 array(list(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 2\TS1/cm
tt/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[]
 
Overfull \hbox (55.67578pt too wide) in paragraph at lines 43416--43416
 []                 \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 4\TS1/cmtt/m/n/9 ` \T1/pcr/m
/n/9 = NULL, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 5\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 = 
NULL), dim=4, dimnames=list(as.character(2:5)))))[] 
Underfull \hbox (badness 10000) in paragraph at lines 43429--43431
[]\T1/pcr/m/n/10 removeTaskCallback []\T1/ptm/m/n/10 un-registers a func-tion t
hat was reg-is-tered ear-lier via
[630]
Underfull \hbox (badness 10000) in paragraph at lines 43509--43512
[][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [
][]$https : / / developer .
[631] [632]
Underfull \hbox (badness 3872) in paragraph at lines 43627--43630
[]\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call
-backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer .
[633]
Underfull \hbox (badness 5475) in paragraph at lines 43693--43697
[][][]\T1/pcr/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 taskCallback
Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 https : / /
[634] [635] [636] [637] [638] [639]
Underfull \hbox (badness 1655) in paragraph at lines 44114--44121
\T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[]
\T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1
/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ',
Underfull \hbox (badness 2253) in paragraph at lines 44122--44127
[]\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se
e the ex-am-ples for typ-i-cal cases. It may
Underfull \hbox (badness 1655) in paragraph at lines 44122--44127
\T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , 
some-thing like `[]\T1/pcr/m/n/10 "2023a"[]\T1/ptm/m/n/10 '. (It does on sys-te
ms us-ing
[640]
Underfull \hbox (badness 4467) in paragraph at lines 44176--44185
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-
turns the time-zone names known to the cur-rently se-
Underfull \hbox (badness 3954) in paragraph at lines 44176--44185
\T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t
he file sys-tem varies,
[641]
Underfull \hbox (badness 1337) in paragraph at lines 44273--44281
\T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de
r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 /
usr/local/etc\T1/ptm/m/n/10 ' or
Underfull \hbox (badness 10000) in paragraph at lines 44282--44285
[]\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym
-link tar-get name of
[642]
Underfull \hbox (badness 3460) in paragraph at lines 44341--44344
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][
] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / data . iana . org /
Underfull \hbox (badness 4429) in paragraph at lines 44345--44347
[][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h
tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol-
Overfull \hbox (31.3804pt too wide) in paragraph at lines 44354--44354
 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET",
 "Eire", ..., but[] 
[643] [644] [645] [646] [647]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 44695--44695
 []\T1/pcr/m/n/9 trace(pt, tracer = quote(cat(sprintf("tracing pt(*, ncp = %.15
g)\n", ncp))),[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 44697--44697
 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL)  ##--> showing the ncp
 root finding:[] 
[648] [649]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 44794--44794
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 44796--44796
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
[650] [651] [652]
Underfull \hbox (badness 6542) in paragraph at lines 45070--45072
[]\T1/pcr/m/n/10 cospi(x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sinpi(x)[]\T1/ptm/
m/n/10 , and []\T1/pcr/m/n/10 tanpi(x)[]\T1/ptm/m/n/10 , com-pute []\T1/pcr/m/n
/10 cos(pi*x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sin(pi*x)[]\T1/ptm/m/n/10 , an
d
[653] [654]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 45189--45189
 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[
 \t\r\n]") 
[655]
Underfull \hbox (badness 1708) in paragraph at lines 45257--45265
[]\T1/pcr/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any
 er-rors that oc-cur dur-ing the eval-u-a-tion. If
Underfull \hbox (badness 3713) in paragraph at lines 45257--45265
\T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][
][]\T1/pcr/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less
[656]
Underfull \hbox (badness 4859) in paragraph at lines 45297--45302
[][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 for set-ting er-ror han-dle
rs and sup-press-ing the print-ing of er-ror mes-sages;
[657]
Underfull \hbox (badness 3895) in paragraph at lines 45359--45372
[]\T1/ptm/m/n/10 A char-ac-ter string. The pos-si-ble val-ues are listed in the
 struc-ture []\T1/pcr/m/n/10 TypeTable []\T1/ptm/m/n/10 in
Underfull \hbox (badness 1303) in paragraph at lines 45359--45372
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/main/util.c\T1/ptm/m/n/10 '. Cur-rent val-ue
s are the vec-tor types []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/
m/n/10 "integer"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 2452) in paragraph at lines 45359--45372
[]\T1/pcr/m/n/10 "promise"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "object"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "language"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "char"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "..."[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "a
ny"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expression"[]\T1/ptm/m/n/10 ,
[658] [659] [660] [661] [662]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 45708--45708
 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp
ression(1+x))[] 
[663] [664] [665]
Underfull \hbox (badness 1137) in paragraph at lines 45847--45854
[]\T1/ptm/m/n/10 When a func-tion call-ing []\T1/pcr/m/n/10 UseMethod("fun") []
\T1/ptm/m/n/10 is ap-plied to an ob-ject with class vec-tor
[666] [667] [668] [669] [670]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46226--46226
 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local
es and fonts[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 46235--46235
 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little-
endian platforms[] 
[671]
Underfull \hbox (badness 1721) in paragraph at lines 46297--46314
[][][]\T1/pcr/m/n/10 file.rename[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 f
ile.symlink[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 dir.create[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dir.exists[][][][]\T1/ptm/m/n/10 , [][][]\
T1/pcr/m/n/10 normalizePath[][][][]\T1/ptm/m/n/10 ,
[672]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 46399--46399
 []\T1/pcr/m/n/9 try( substr(x, 1,1) ) # gives \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 in
valid multibyte string\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 error in a UTF-8 locale[] 
[673]
Underfull \hbox (badness 1803) in paragraph at lines 46462--46465
[]\T1/ptm/m/n/10 The atomic modes are []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric" []\
T1/ptm/m/n/10 (syn-onym []\T1/pcr/m/n/10 "double"[]\T1/ptm/m/n/10 ),
Underfull \hbox (badness 3471) in paragraph at lines 46466--46472
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 mode = "any"[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 is.vector []\T1/ptm/m/n/10 may re-turn []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/
n/10 for the atomic modes, [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 and
[674] [675] [676]
Underfull \hbox (badness 1014) in paragraph at lines 46694--46697
[]\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me
-di-ately, even if
[677] [678]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 46803--46803
 []      \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes
sages:\n"),[] 
[679]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46880--46880
 []\T1/pcr/m/n/9 ## at the end prints all three warnings, from the \TS1/pcr/m/n
/9 '\T1/pcr/m/n/9 option(warn = 0)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 above[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 46888--46888
 []\T1/pcr/m/n/9 x <- 1:36; for(n in 1:13) for(m in 1:12) A <- matrix(x, n,m) #
 There were 105 warnings ...[] 
[680]
Underfull \hbox (badness 1783) in paragraph at lines 46953--46955
[]\T1/pcr/m/n/10 weekdays []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 months []\T1/pt
m/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e.,
[681]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 46983--46983
 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w
eek, yr}), ... :[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 46995--46995
 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Even simpler:  Date -> Matrix
 - dropping time info {sec,min,hour, isdst}[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 46998--46998
 []\T1/pcr/m/n/9 d2mat(seq(as.Date("2000-02-02"), by=1, length.out=30)) # has R
 1.0.0\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s release date[] 
[682]
Underfull \hbox (badness 10000) in paragraph at lines 47060--47065
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 arr.ind == TRUE []\T1/ptm/m/n/10 and []\T1
/pcr/m/n/10 x []\T1/ptm/m/n/10 is an [][][]\T1/pcr/m/n/10 array[][][] []\T1/ptm
/m/n/10 (has a [][][]\T1/pcr/m/n/10 dim[][][] []\T1/ptm/m/n/10 at-tribute), the
 re-sult is
Underfull \hbox (badness 2564) in paragraph at lines 47060--47065
[]\T1/pcr/m/n/10 arrayInd(which(x), dim(x), dimnames(x))[]\T1/ptm/m/n/10 , name
ly a ma-trix whose rows each
[683]
Underfull \hbox (badness 2818) in paragraph at lines 47158--47164
[]\T1/ptm/m/n/10 For a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 vec-
tor []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with both []\T1/pcr/m/n/10 FALSE []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 val-ues, []\T1/pcr/m/n/10
 which.min(x) []\T1/ptm/m/n/10 and
[684]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 47193--47193
 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is
 at least one:[] 
[685] [686] [687] [688] [689] [690] [691]
Underfull \hbox (badness 2846) in paragraph at lines 47688--47692
[]\T1/pcr/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren
tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas
[692]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 47728--47728
 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char
acter vector[] 
Underfull \hbox (badness 3209) in paragraph at lines 47749--47753
[]\T1/pcr/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da
rd' reg-exps, in-clud-ing el-e-ments named
[693]) (./compiler-pkg.tex [694]
Chapter 2.
[695]
Underfull \hbox (badness 2884) in paragraph at lines 107--121
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 options []\T1/ptm/m/n/10 ar-gu-ment can b
e used to con-trol com-piler op-er-a-tion. There are cur-
Underfull \hbox (badness 10000) in paragraph at lines 107--121
\T1/ptm/m/n/10 rently four op-tions: []\T1/pcr/m/n/10 optimize[]\T1/ptm/m/n/10 
, []\T1/pcr/m/n/10 suppressAll[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressUndef
ined[]\T1/ptm/m/n/10 , and
[696] [697] [698]) (./datasets-pkg.tex
Chapter 3.
[699] [700] [701] [702] [703]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 297--297
 []  \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang
e", cex = 1.2,[] 
[704]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 375--375
 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi
ven = FALSE)[] 
[705] [706] [707]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 613--613
 []           \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t
race = TRUE)[] 
[708] [709]
Underfull \hbox (badness 4779) in paragraph at lines 700--703
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[710] [711]
Underfull \hbox (badness 4779) in paragraph at lines 832--835
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[712] [713]
Underfull \hbox (badness 1097) in paragraph at lines 1034--1038
[]\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th
e iden-ti-fi-ca-tion of crim-i-nals.
[714] [715]
Underfull \hbox (badness 4779) in paragraph at lines 1149--1152
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[716] [717] [718] [719] [720]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1463--1463
 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption
 time (sec)")[] 
[721] [722]
Underfull \hbox (badness 10000) in paragraph at lines 1548--1551
[]\T1/ptm/m/n/10 Finally, []\T1/pcr/m/n/10 freeny []\T1/ptm/m/n/10 is a data fr
ame with vari-ables []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lag.q
uarterly.revenue[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 2903) in paragraph at lines 1548--1551
[]\T1/pcr/m/n/10 price.index[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 income.level[]\
T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 market.potential []\T1/ptm/m/n/10 ob-taine
d from the above
[723] [724] [725]
Underfull \hbox (badness 4779) in paragraph at lines 1737--1740
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[726]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1835--1835
 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil
y = binomial())[] 
[727]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1843--1843
 []  \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum),
 data = infert)[] 
[728]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1960--1960
 []\T1/pcr/m/n/9 ## Iris versicolor "differs twice as much from I. setosa as fr
om I. virginica"[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1965--1965
 []\T1/pcr/m/n/9 ## equivalence of legacy array (iris3) and data.frame (iris) r
epresentation[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1969--1969
 []                                        \T1/pcr/m/n/9 sub(" W.",".Width", dn
i3[[2]])))),[] 
[729]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1970--1970
 []    \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d
ni3[[3]]))))[] 
[730] [731] [732]
Underfull \hbox (badness 4779) in paragraph at lines 2173--2176
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[733] [734] [735] [736] [737] [738] [739] [740] [741] [742]
Underfull \hbox (badness 4779) in paragraph at lines 2738--2741
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[743] [744] [745] [746] [747] [748]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3168--3168
 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 
1.2, pch = ".")[] 
[749]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3215--3215
 []\T1/pcr/m/n/9 myrandu <- matrix(NA_real_, 400, 3, dimnames = list(NULL, c("x
","y","z")))[] 
[750] [751] [752] [753] [754]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 3521--3521
 []\T1/pcr/m/n/9 ## Alaska and Hawaii are placed just off the West Coast (for c
ompact map drawing):[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 3523--3523
 []\T1/pcr/m/n/9 ## state.center2 := version of state.center with "correct" coo
rdinates for AK & HI:[] 
Overfull \hbox (85.38034pt too wide) in paragraph at lines 3524--3524
 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis
t.html#Geographic%20Centers[] 
[755] [756]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3655--3655
 []          \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t
he monthly one:[] 
[757] [758]
Underfull \hbox (badness 4779) in paragraph at lines 3803--3806
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[759]
Overfull \vbox (10.49593pt too high) has occurred while \output is active
[760]
Overfull \vbox (15.49593pt too high) has occurred while \output is active
[761]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 4012--4012
 []       \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of
 supplement")[] 
Underfull \hbox (badness 10000) in paragraph at lines 4048--4050
[]\T1/ptm/m/n/10 For some pho-tos of Methuse-lah Walk see [][]$\T1/pcr/m/n/10 h
ttps : / / web . archive . org / web /
Underfull \hbox (badness 10000) in paragraph at lines 4048--4050
\T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma
n / sitephotos /
[762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773]
[774] [775]) (./grDevices-pkg.tex [776]
Chapter 4.
[777] [778] [779] [780]
Underfull \hbox (badness 4752) in paragraph at lines 297--302
[]\T1/ptm/m/n/10 Apart from that, [][][]\T1/pcr/m/n/10 axisTicks[][][]() []\T1/
ptm/m/n/10 just calls the C func-tion []\T1/pcr/m/n/10 CreateAtVector() []\T1/p
tm/m/n/10 in
Underfull \hbox (badness 2865) in paragraph at lines 297--302
\T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R\T1/pcr/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 
' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack
-age func-tion
[781] [782] [783] [784]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 525--525
 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d
.pdf",[] 
[785] [786] [787] [788] [789]
Underfull \hbox (badness 2245) in paragraph at lines 907--912
[]\T1/ptm/m/n/10 Hexadecimal string col-ors can be in the long hex-adec-i-mal f
orm (e.g., []\T1/pcr/m/n/10 "#rrggbb" []\T1/ptm/m/n/10 or
[790] [791]
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 []\T1/pcr/m/n/9 names(clmult) <- sapply(clmult, function(x) paste(crgb[,x[1]],
 collapse = ","))[] 
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 []    \T1/pcr/m/n/9 lattice::cloud(blue ~ red + green, data = as.data.frame(tc
), col = cNms)[] 
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 []\T1/pcr/m/n/9 cNms[isC] # "white" "black" "blue" "cyan" "green" "magenta" "r
ed" "yellow"[] 
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 []   \T1/pcr/m/n/9 plot3d (tc, col = cNms, size = 11) # --> rotate w/ mouse; e
nlarged corners:[] 
[792] [793] [794] [795]
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[]\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm
. The source code is in
[796] [797]
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 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", 
scale.in = 255))[] 
[798] [799] [800] [801]
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[]\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo
re of
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[]\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern")
[802] [803] [804] [805] [806]
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[]\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 dev.print []\T1/ptm/m/n/10 i
s to pro-duce and print a postscript copy. This will not
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\T1/ptm/m/n/10 sys-tem: see [][][]\T1/pcr/m/n/10 postscript[][][] []\T1/ptm/m/n
/10 for how to set this up. Win-dows users may pre-fer to use
[807]
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 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res 
= 72,[] 
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[]\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of []\T1/pcr
/m/n/10 ghostscript[]\T1/ptm/m/n/10 , but are likely to in-
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[]\T1/pcr/m/n/10 "tiffg4"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffgray"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "tifflzw"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffp
ack"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiff12nc"[]\T1/ptm/m/n/10 , []\T1/pcr/
m/n/10 "tiff24nc"[]\T1/ptm/m/n/10 ,
[808] [809]
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[]\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the 
set-ting of
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 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac
ter())[] 
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[]\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript
 doc-u-men-ta-tion) are
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[]\T1/pcr/m/n/10 embedGlyphs() []\T1/ptm/m/n/10 is rec-om-mended for []\T1/pcr/
m/n/10 pdf() []\T1/ptm/m/n/10 files that con-tain type-set glyphs (see
[812] [813]
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[]\T1/ptm/m/n/10 are given, then it uses those in a call to []\T1/pcr/m/n/10 se
tGraphicsEventHandlers []\T1/ptm/m/n/10 to re-place
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\T1/ptm/m/n/10 any ex-ist-ing han-dlers in the cur-rent de-vice. This is for co
m-pat-i-bil-ity with pre-2.12.0
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\T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions. The cur-rent nor-mal way to set up e
vent han-dlers is to set them us-ing
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[]\T1/pcr/m/n/10 setGraphicsEventHandlers []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 
setGraphicsEventEnv []\T1/ptm/m/n/10 on one or more graph-ics
[814] [815]
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 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r"
, yaxs = "r") {[] 
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[817] [818]
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 []\T1/pcr/m/n/10 gray.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re
v = FALSE) 
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 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re
v = FALSE)[] 
[819] [820] [821] [822] [823]
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[825] [826] [827] [828]
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 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized
 = FALSE)[] 
[829]
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 []\T1/pcr/m/n/9 zapsmall(luv <- convertColor(cols, from = "sRGB", to = "Luv", 
scale.in = 255))[] 
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 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv",  to = hexcolor, scale.
out = NULL))[] 
[830] [831] [832]
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[]\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b
ased on the inter-quartile range
[833]
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 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl
e = FALSE,[] 
[834]
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 []\T1/pcr/m/n/9 (palette(gray(seq(0,.9,length.out = 25)))) # gray scales; prin
t old palette[] 
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 []\T1/pcr/m/n/9 ## Demonstrate the colors 1:8 in different palettes using a cu
stom matplot()[] 
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 []    \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:n, ylab =
 "", main=main)[] 
[835]
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 []\T1/pcr/m/n/9 palROB <- colorRampPalette(c("red", "darkorange2", "blue"), sp
ace = "Lab")[] 
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 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE,
 fixup = TRUE) 
[836]
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[]\T1/ptm/m/n/10 the type of palettes to list: []\T1/pcr/m/n/10 "qualitative"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sequential"[]\T1/ptm/m/n/10 ,
[837]
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[]\T1/ptm/m/n/10 For ex-am-ple, []\T1/pcr/m/n/10 "Dark 3" []\T1/ptm/m/n/10 work
s well for shad-ing points or lines in up to five groups,
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\T1/pcr/m/n/10 wikipedia . org / w / index . php ? title = HCL _ color _ space 
& oldid = 883465135$[][]\T1/ptm/m/n/10 .
[838]
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[840]
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[]\T1/ptm/m/n/10 as `\T1/pcr/m/n/10 "CP1250.enc"\T1/ptm/m/n/10 ' (Cen-tral Eu-r
o-pean), []\T1/pcr/m/n/10 "CP1251.enc"
[841] [842]
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\T1/ptm/m/n/10 PostScript fonts fam-i-lies of those names which are in-cluded (
or cloned) in all com-mon
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\T1/ptm/m/n/10 cod-ings (ex-cept []\T1/pcr/m/n/10 "TeXtext"[]\T1/ptm/m/n/10 ) a
gree over that range. Some en-cod-ings are su-per-sets of
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\T1/ptm/m/n/10 ISO-Latin1. How-ever, if ac-cented and spe-cial char-ac-ters do 
not come out as you ex-
[843] [844] [845]
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[]\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 family[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , [
]\T1/pcr/m/n/10 fonts[]\T1/ptm/m/n/10 ,
[846] [847] [848]pdfTeX warning (ext4): destination with the same identifier (n
ame{Rfn.symbol}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.4872 \aliasA{symbol}{plotmath}{symbol}
                                         [849] [850] [851] [852]
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[854] [855] [856]
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[]\T1/ptm/m/n/10 The TIFF spec-i-fi-ca-tion, [][]$\T1/pcr/m/n/10 https : / / ww
w . iso . org / standard / 34342 . html$[][]\T1/ptm/m/n/10 . See also
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 []\T1/pcr/m/n/9 ## Not run: dev.print(png, filename = "myplot.png", width = 10
24, height = 768)[] 
[857]
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[]\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE[]\T1/ptm/m/n/10 
, give a C in-te-ger for-mat such as
[858] [859] [860]
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[]\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t
ion by Brian D'Urso
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[][][]\T1/pcr/m/n/10 postscriptFonts[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 Devices[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 check.options[][][]
 []\T1/ptm/m/n/10 which is called from both
[861] [862]
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[]\T1/pcr/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Bookman"[]\T1
/ptm/m/n/10 , []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "He
lvetica"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 
,
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[]\T1/pcr/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Pal
atino" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/pc
r/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "URWBookman"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusMon"[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusSan" []\T1/ptm/m/n/10 (syn-onym []\T1/p
cr/m/n/10 "URWHelvetica"[]\T1/ptm/m/n/10 ),
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[]\T1/ptm/m/n/10 There are also map-pings for []\T1/pcr/m/n/10 "ComputerModern"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ComputerModernItalic" []\T1/ptm/m/n/10 and
[863]
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[]\T1/pcr/m/n/10 "Japan1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1HeiMin"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1GothicBBB"[]\T1/ptm/m/n/10 , and []\T1/p
cr/m/n/10 "Japan1Ryumin" []\T1/ptm/m/n/10 for
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[]\T1/pcr/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/p
cr/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu /
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[865]
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 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r
eg-tests-1c.R[] 
[866] [867]
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 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100
, ...)[] 
[868]
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[]\T1/ptm/m/n/10 Calling []\T1/pcr/m/n/10 quartz() []\T1/ptm/m/n/10 sets [][][]
\T1/pcr/m/n/10 .Device[][][] []\T1/ptm/m/n/10 to []\T1/pcr/m/n/10 "quartz" []\T
1/ptm/m/n/10 for on-screen de-vices and to
[869]
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 []  \T1/pcr/m/n/9 quartzFonts("mono")          # the list(mono = ..) sublist o
f quartzFonts()[] 
[870] [871] [872]
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\T1/ptm/m/n/10 play List", [][]$\T1/pcr/m/n/10 https : / / stattech . wordpress
 . fos . auckland . ac . nz / 2015 / 12 / 21 /
[873]
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 []\T1/pcr/m/n/9 rgb((0:15)/15, green = 0, blue = 0, names = paste("red", 0:15,
 sep = "."))[] 
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[]\T1/pcr/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r
ed/green/blue) into HSV space
[874] [875]
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[877]
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 []\T1/pcr/m/n/9 p <- persp(x, y, fxy <- outer(x,y), phi = 20, theta = 15, r = 
3, ltheta = -75,[] 
[878]
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 []\T1/pcr/m/n/9 ## now some "horizontal rays" (going from center to very left 
or very right):[] 
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 []    \T1/pcr/m/n/9 lines(trans3d(x=seq(x1, x2, by=0.5), y= -0.7, z = z, pmat 
= p, continuous = CNT),[] 
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 []\T1/pcr/m/n/9 doHor(-10,  0, z = -0.5, col = 2)  # x in [-10, 0] -- to the v
ery left : fine[] 
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 []\T1/pcr/m/n/9 doHor(-.5,  2, z = -0.52,col = 4) # x in [-0.5, 2] only {to th
e right} --> all fine[] 
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 []\T1/pcr/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro
blem (without \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 continuous=TRUE\TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 ):[] 
[879] [880]
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 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp
inch, 
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 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize 
= 12,[] 
[881] [882] [883] [884]
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[]\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/ptm/m/n/10 , []\
T1/pcr/m/n/10 record[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 rescale[]\T1/ptm/m/n/10
 ,
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[]\T1/pcr/m/n/10 xpinch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 ypinch[]\T1/ptm/m/n/
10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 canvas[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 gamma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 xpos[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 ypos[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 buffered[]\T1/
ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 restoreConsole[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 clickToConfi
rm[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 
fillOddEven []\T1/ptm/m/n/10 and
[885]
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 []\T1/pcr/m/n/9 windows()  # make sure we have the right device type (availabl
e on Windows only)[] 
[886]
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[]\T1/ptm/m/n/10 The \T1/phv/m/n/10 R \T1/ptm/m/n/10 func-tion is a wrap-per fo
r two de-vices, one based on Xlib ([][]$\T1/pcr/m/n/10 https : / /
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\T1/pcr/m/n/10 en . wikipedia . org / wiki / Xlib$[][]\T1/ptm/m/n/10 ) and one 
us-ing cairo-graph-ics ([][]$\T1/pcr/m/n/10 https : / / www .
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 []    \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol
family)[] 
[887]
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[]\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used
. One of
[888]
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[]\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ
K lan-guages and
[889]
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[]\T1/ptm/m/n/10 Problems with in-cor-rect ren-der-ing of sym-bols (e.g., of []
\T1/pcr/m/n/10 quote(pi) []\T1/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 expression(10^degree)[]\T1/ptm/m/n/10 ) have been seen on Linu
x sys-tems which have the Wine
[890]
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[]\T1/pcr/m/n/10 type = "Xlib" []\T1/ptm/m/n/10 sup-ports `True-Color', `Pseu-d
o-Color', `GrayScale', []\T1/pcr/m/n/10 StaticGray []\T1/ptm/m/n/10 and
[891]
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 []        \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height
 = 6, xpos = 0,[] 
[892] [893]
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[]\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica" []\T1
/ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10
 ,
[894] [895]
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 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp
ress the one "we know":[] 
[896]
Underfull \hbox (badness 1231) in paragraph at lines 8129--8131
[]\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., []\T1/pcr/m/n/10
 number[i] []\T1/ptm/m/n/10 is the mul-ti-plic-ity of
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 []\T1/pcr/m/n/9 xy <- data.frame(x = round(sort(stats::rnorm(100))), y = stats
::rnorm(100))[] 
[897] [898]) (./graphics-pkg.tex
Chapter 5.
Underfull \hbox (badness 4647) in paragraph at lines 16--18
[]\T1/ptm/m/n/10 For a com-plete list of func-tions with in-di-vid-ual help pag
es, use []\T1/pcr/m/n/10 library(help =
[899] [900] [901] [902] [903] [904] [905]
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 []  \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] 
Underfull \hbox (badness 4048) in paragraph at lines 482--488
[]\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 at = NULL[]\T1/ptm/m/n/10 , pretty tick 
mark lo-ca-tions are com-puted in-ter-nally (the same way
[906] [907]
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 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t
he axis labels drawn[] 
[908]
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 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis 
= "darkgreen")[] 
[909]
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 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.POSIXct("2022-10-01 00:01:30"), col.ax
is = "orange")[] 
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 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.numeric(as.POSIXct("2022-10-01 00:00:3
0")) + 0.25,[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 718--718
 []                \T1/pcr/m/n/9 col.axis = "forestgreen", col = "darkgreen", m
gp = c(3,2,0))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 724--724
 []\T1/pcr/m/n/9 plot(data.frame(HST, y = 1), xaxt = "n", xlab = "Hawaii Standa
rd Time (HST)")[] 
Underfull \hbox (badness 10000) in paragraph at lines 751--755
[]\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][][]\T1/pcr
/m/n/10 par[][][]("xaxp") []\T1/ptm/m/n/10 or
Underfull \hbox (badness 3250) in paragraph at lines 751--755
[][][]\T1/pcr/m/n/10 par[][][]("yaxp") []\T1/ptm/m/n/10 de-pend-ing on the []\T
1/pcr/m/n/10 side []\T1/ptm/m/n/10 ar-gu-ment ([]\T1/pcr/m/n/10 par("xaxp") []\
T1/ptm/m/n/10 if
[910] [911]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 838--838
 []                 \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n
intLog = 5))[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 875--875
 []        \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = 
NULL, ...)[] 
[912] [913]
Underfull \hbox (badness 10000) in paragraph at lines 1020--1024
[][][]\T1/pcr/m/n/10 plot[][][](..., type = "h")[]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 dotchart[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 hist[][][] []\T1
/ptm/m/n/10 for bars of a \T1/ptm/m/it/10 con-tin-u-ous \T1/ptm/m/n/10 vari-abl
e.
[914]
Overfull \hbox (133.98029pt too wide) in paragraph at lines 1037--1037
 []        \T1/pcr/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = "
# {passengers}", legend.text = TRUE)[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1039--1039
 []\T1/pcr/m/n/9 (xt <- xtabs(Freq ~ Survived + Class + Sex, d.Titanic, subset 
= Age=="Adult"))[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 1041--1041
 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur
vived, *)", color=TRUE)[] 
[915] [916] [917] [918]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1324--1324
 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. 
outside hinges"):[] 
[919] [920] [921]
Underfull \hbox (badness 2503) in paragraph at lines 1486--1495
\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 horizontal []\T1/ptm/m/n/10 is false, and 
[]\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 hor-i-zon-tally. []\T1/pcr/m/n/10 xaxt[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yaxt[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3375) in paragraph at lines 1521--1523
[]\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt
m/m/n/10 ),
[922]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1593--1593
 []\T1/pcr/m/n/9 boxplot(z,   col.axis = "skyblue3", main = "boxplot(*, col.axi
s=..,main=..)")[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1594--1594
 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main =    "plot(*, col.axi
s=..,main=..)")[] 
[923]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1600--1600
 []\T1/pcr/m/n/9 splus <- list(boxwex = 0.4, staplewex = 1, outwex = 1, boxfill
 = "grey40",[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 1601--1601
 []              \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl
ty = 1, outpch = NA)[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 1634--1634
 []  \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU
LL, ...)[] 
[924] [925] [926] [927] [928]
Underfull \hbox (badness 10000) in paragraph at lines 1907--1913
[][][]\T1/pcr/m/n/10 contourLines[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
filled.contour[][][] []\T1/ptm/m/n/10 for color-filled con-tours, [][][]\T1/pcr
/m/n/10 contourplot[][][] []\T1/ptm/m/n/10 (and
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1927--1927
 []\T1/pcr/m/n/9 contour(x, x, z, ylim = c(-6, 6), nlevels = 20, lty = 2, metho
d = "simple",[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1939--1939
 []\T1/pcr/m/n/9 contour(z, levels=levs[-c(1,length(levs))], col = 1:5, lwd = 1
:3 *1.5, lty = 1:3)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1955--1955
 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1964--1964
 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
[929] [930]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2049--2049
 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col
umns, 
[931] [932]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 2178--2178
 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given
.depth, rows = 1)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 2183--2183
 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c(
TRUE, FALSE))[] 
[933] [934]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2357--2357
 []\T1/pcr/m/n/10 dotchart(x, labels = NULL, groups = NULL, gdata = NULL, offse
t = 1/8, 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 2358--2358
 []         \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T
RUE, log = "",[] 
[935]
Underfull \hbox (badness 1430) in paragraph at lines 2388--2390
[]\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/pcr/m/n/10 
"n" []\T1/ptm/m/n/10 to sup-press and see also
[936]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 2469--2469
 []               \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO
rRd", rev = TRUE),[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 2471--2471
 []               \T1/pcr/m/n/10 plot.title, plot.axes, key.title, key.axes, ke
y.border = NULL,[] 
Underfull \hbox (badness 1009) in paragraph at lines 2481--2488
\T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n
ot ap-ply to
[937]
Underfull \hbox (badness 7273) in paragraph at lines 2564--2568
[][][]\T1/pcr/m/n/10 contour[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 image
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 hcl.colors[][][][]\T1/ptm/m/n/10 
, [][][]\T1/pcr/m/n/10 gray.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 palette[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 contourplot[][][] []\T1/p
tm/m/n/10 and
[938] [939] [940] [941]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2813--2813
 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks:  par(lab = c
(mx, my, 7))[] 
[942]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 2834--2834
 []\T1/pcr/m/n/9 plot(8:270, log="xy") ; grid() # at (1, 10, 100); if preferrin
g "all" grid lines:[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2861--2861
 []     \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = 
NULL,[] 
[943] [944]
Underfull \hbox (badness 1226) in paragraph at lines 2988--2992
\T1/pcr/m/n/10 1)[]\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies []\T1
/pcr/m/n/10 counts/n []\T1/ptm/m/n/10 and in gen-eral sat-isfy
[945]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3041--3041
 []\T1/pcr/m/n/9 ## Extreme outliers; the "FD" rule would take very large numbe
r of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 breaks\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3045--3045
 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a 
suggestion only"[] 
[946]
Underfull \hbox (badness 10000) in paragraph at lines 3107--3110
[][][]\T1/ptm/m/n/10 graphical pa-ram-e-ters[][][], or ar-gu-ments to [][][]\T1
/pcr/m/n/10 hist.default[][][] []\T1/ptm/m/n/10 such as
[947]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3158--3158
 []\T1/pcr/m/n/9 ## The default fuzz in hist.default()  "kills" this, with a "w
rong" message:[] 
[948] [949]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3322--3322
 []\T1/pcr/m/n/9 identifyPch <- function(x, y = NULL, n = length(x), plot = FAL
SE, pch = 19, ...)[] 
Overfull \hbox (79.98035pt too wide) in paragraph at lines 3327--3327
 []        \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel)
, n = 1, plot = plot, ...)[] 
[950] [951]
Underfull \hbox (badness 10000) in paragraph at lines 3469--3474
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 useRaster []\T1/ptm/m/n/10 is not spec-i-f
ied, raster im-ages are used when the
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[][][]\T1/pcr/m/n/10 getOption[][][]("preferRaster") []\T1/ptm/m/n/10 is true, 
the grid is reg-u-lar and ei-ther
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[][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt
m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3504--3504
 []\T1/pcr/m/n/9 # Visualize as matrix.  Need to transpose matrix and then flip
 it horizontally:[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3506--3506
 []\T1/pcr/m/n/9 imageM <- function(m, grid = max(dim(m)) <= 25, asp = (nrow(m)
-1)/(ncol(m)-1), ...) {[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3509--3509
 []        \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray
", col.axis=1, ...)[] 
[952] [953] [954]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3666--3666
 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 
0, horiz = TRUE)[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 3685--3685
 []       \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = 
par("fg"),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3689--3689
 []       \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace =
 FALSE,[] 
[955] [956] [957]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3874--3874
 []  \T1/pcr/m/n/9 text  (1, y.leg[i] - 0.1, paste("cex=", formatC(cexv[i])), c
ex = 0.8, adj = 0)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3875--3875
 []  \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce
x = cexv[i])[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3879--3879
 []       \T1/pcr/m/n/9 cex = 1+(-1:2)/8, trace = TRUE)# trace: show computed l
engths & coords[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3889--3889
 []  \T1/pcr/m/n/9 title("legend(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 top\TS1/pcr/m/n/
9 '\T1/pcr/m/n/9 , lty = c(2, -1, 1), pch = c(NA, 3, 4), merge = TRUE)",[] 
[958]
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 []                      \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj
 = c(0, 0.3))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3946--3946
 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Filled\TS1/pcr/m/n/9 ' \T1/pc
r/m/n/9 boxes -- see also example(barplot) which may call legend(*, fill=)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3948--3948
 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow
(VADeaths)))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [959]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3959--3959
 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7
, lty = 1:7,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3974--3974
 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c
ol = "blue")[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3982--3982
 []\T1/pcr/m/n/9 legend("topleft",     "(x,y)", pch=1, title= "topleft, inset =
 .05", inset = .05)[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3984--3984
 []\T1/pcr/m/n/9 legend("topright",    "(x,y)", pch=1, title= "topright, inset 
= .02",inset = .02)[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3992--3992
 []   \T1/pcr/m/n/9 plot(1, type = "n", axes = FALSE, ann = FALSE); title(paste
("text.font =",i))[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4002--4002
 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized"
, "columns."),[] 
[960]
Underfull \hbox (badness 10000) in paragraph at lines 4064--4068
[][][]\T1/pcr/m/n/10 lines.formula[][][] []\T1/ptm/m/n/10 for the for-mula meth
od; [][][]\T1/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , par-tic-u-larly for []\
T1/pcr/m/n/10 type %in%
[961] [962]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 4176--4176
 []        \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb
ose"))[] 
[963] [964]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 4330--4330
 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le
ngth.out = 100))[] 
[965]
Underfull \hbox (badness 3930) in paragraph at lines 4409--4411
[]\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a 
mul-ti-ple of
[966] [967] [968] [969] [970]
Underfull \hbox (badness 1286) in paragraph at lines 4725--4728
[]\T1/ptm/m/n/10 which draws the ti-tle. You may want to spec-ify []\T1/pcr/m/n
/10 oma []\T1/ptm/m/n/10 when chang-ing
Underfull \hbox (badness 3229) in paragraph at lines 4733--4738
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are 
to be used, see
[971] [972]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4829--4829
 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel 
= panel.cor,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4834--4834
 []      \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma
=c(2,2,3,2))[] 
[973] [974]
Underfull \hbox (badness 1264) in paragraph at lines 5096--5109
\T1/ptm/m/n/10 func-tions such as [][][]\T1/pcr/m/n/10 plot.default[][][][]\T1/
ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.window[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lines[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 abline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 axis[][][][]\T1/ptm/m/n/10 ,
[975] [976] [977]
Underfull \hbox (badness 10000) in paragraph at lines 5362--5365
[978 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//mai.pdf>]
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[979 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//oma.pdf>]
[980] [981]
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 []\T1/pcr/m/n/9 c(prof.pilots = 16, lawyers = 11, farmers = 10, salesmen = 9, 
physicians = 9,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5673--5673
 []  \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t
eachers = 4,[] 
[982] [983] [984]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5890--5890
 []\T1/pcr/m/n/9 points(trans3d(xy[,1], xy[,2], z = 6,          pmat = res), co
l = 2, pch = 16)[] 
[985] [986] [987]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6037--6037
 []\T1/pcr/m/n/9 pie(c(Sky = 78, "Sunny side of pyramid" = 17, "Shady side of p
yramid" = 5),[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 6038--6038
 []    \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow
3"), border = FALSE)[] 
[988]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6097 \aliasA{plot}{plot.default}{plot}
                                         [989] [990] [991] [992] [993]
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 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth)           # numeric v
ector ~ factor[] 
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 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes")  # ext
remely silly[] 
[994] [995]
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 []               \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co
llapse = "\n")),[] 
[996] [997] [998] [999]
Underfull \hbox (badness 10000) in paragraph at lines 6862--6864
[]\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see
[1000] [1001]
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[]\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th
is works as a mul-ti-ple of
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[][] 
[1002 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//pch.pdf>]
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 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b
lue", cex = .6,[] 
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 []\T1/pcr/m/n/9 ## Illustration of pch = 0:25 (as in the figure shown above in
 PDF/HTML help)[] 
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 []\T1/pcr/m/n/9 ## Not run: png("pch.png", height = 0.7, width = 7, res = 100,
 units = "in")[] 
[1003]
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 []    \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes  =  FALSE, xlab = "", ylab =
 "", main = main)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1004]
[1005]
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[]\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev
in Buhr
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 []  \T1/pcr/m/n/9 polygon(x, y, xpd = xpd, col = "orange", lty = 2, lwd = 2, b
order = "red")[] 
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 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats::
rnorm(n)))))[] 
[1006]
Underfull \hbox (badness 2600) in paragraph at lines 7332--7334
[]\T1/ptm/m/n/10 character value spec-i-fy-ing the path fill mode: ei-ther []\T
1/pcr/m/n/10 "winding" []\T1/ptm/m/n/10 or
[1007] [1008] [1009] [1010]
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 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7
, end = 0.1))[] 
[1011] [1012] [1013] [1014] [1015] [1016]
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 []\T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), sp
ace = "Lab")[] 
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 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit
h obs.number):[] 
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 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0
, add = TRUE),[] 
[1017]
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 []          \T1/pcr/m/n/10 xlim = NULL, ylim = c(0, 1), axes = TRUE, weights =
 NULL, ...)[] 
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 []          \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels =
 FALSE)[] 
[1018] [1019] [1020] [1021] [1022]
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 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi
us  =  FALSE,[] 
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 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi
us  =  FALSE,[] 
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 []      \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10
, key.loc =  0:1,[] 
[1023] [1024] [1025]
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 []\T1/pcr/m/n/10 strwidth(s, units = "user", cex = NULL, font = NULL, vfont = 
NULL, ...) 
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 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont =
 NULL, ...)[] 
[1026] [1027]
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 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL,
 ...,[] 
[1028]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 number[i] == 1[]\T1/ptm/m/n/10 , a (sligh
tly en-larged) usual plot-ting sym-bol ([]\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 ) 
is drawn. For
Overfull \hbox (20.58041pt too wide) in paragraph at lines 8736--8736
 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035
, seg.lwd = .8)[] 
[1029]
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 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, 
lambda = 2),[] 
[1030] [1031]
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 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll
apse = ","),[] 
[1032] [1033]
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 []     \T1/pcr/m/n/9 "Le fran�ais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est facile: 
R�gles, Libert�, Egalit�, Fraternit�...")[] 
[1034]
Underfull \hbox (badness 1215) in paragraph at lines 9109--9111
[]\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/pcr/m
/n/10 par(c("font.sub",
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[]\T1/ptm/m/n/10 The po-si-tions of []\T1/pcr/m/n/10 xlab[]\T1/ptm/m/n/10 , []\
T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sub []\T1/ptm/m/n/10 a
re []\T1/pcr/m/n/10 line []\T1/ptm/m/n/10 (de-fault for []\T1/pcr/m/n/10 xlab [
]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 be-ing
[1035]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni
ts}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9191 \HeaderA{units}{Graphical Units}{units}
                                              pdfTeX warning (ext4): destinatio
n with the same identifier (name{Rfn.units.1}) has been already used, duplicate
 ignored
<to be read again> 
                   \relax 
l.9191 \HeaderA{units}{Graphical Units}{units}
                                               [1036]
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[]\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th
e poly-gon. See
[1037] [1038]
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 []\T1/pcr/m/n/9 arrows(res$x[nr-3], res$y[nr-3], res$x[nr], res$y[nr], code = 
2, length = 0.1)[] 
[1039]) (./grid-pkg.tex [1040]
Chapter 6.
[1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050]
Underfull \hbox (badness 4859) in paragraph at lines 635--638
[]\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments
 to the
[1051] [1052] [1053] [1054] [1055] [1056]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1057] [1058] [1059]
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 []               \T1/pcr/m/n/9 vpList(vpStack(viewport(x=0.1, y=0.1, width=0.5
, height=0.5,[] 
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 []                                       \T1/pcr/m/n/9 just=c("left", "bottom"
), name="B"),[] 
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 []                              \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5
, height=0.5,[] 
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 []                                       \T1/pcr/m/n/9 just=c("left", "bottom"
), name="C"),[] 
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 []                              \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5
, height=0.5,[] 
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 []                                       \T1/pcr/m/n/9 just=c("left", "bottom"
), name="D")),[] 
[1060] [1061] [1062] [1063]
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[]\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject 
de-scrib-ing a cir-cle), but only
[1064] [1065] [1066] [1067] [1068] [1069] [1070]
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 []  \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75)
, list(...)))[] 
[1071] [1072] [1073]
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.25, y=.75, gp=gpar(fill="bla
ck"), name="r1")[] 
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.5, y=.5, gp=gpar(fill="grey"
), name="r2")[] 
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi
te"), name="r3")[] 
[1074]
Underfull \hbox (badness 2961) in paragraph at lines 2143--2148
[]\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio
ns []\T1/pcr/m/n/10 preDrawDetails[]\T1/ptm/m/n/10 ,
[1075]
Underfull \hbox (badness 4479) in paragraph at lines 2231--2234
[]\T1/ptm/m/n/10 Both func-tions call []\T1/pcr/m/n/10 editDetails []\T1/ptm/m/
n/10 to al-low a grob to per-form cus-tom ac-tions and
[1076] [1077] [1078]
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[]\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de
-scrib-ing a frame), but only
[1079] [1080] [1081]
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 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = 
FALSE)[] 
[1082]
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[]\T1/ptm/m/n/10 The jus-ti-fi-ca-tion of the glyphs rel-a-tive to the ([]\T1/p
cr/m/n/10 x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) lo-ca-tion. 
Can be
[1083]
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 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs =
 FALSE,[] 
[1084] [1085]
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 []                          \T1/pcr/m/n/9 children=gList(grob(name="child", vp
="vp1::vp2")),[] 
[1086]
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 []           \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp =
 NULL)[] 
[1087] [1088]
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[]\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix;
 see
[1089]
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[]\T1/ptm/m/n/10 Another pos-si-ble use of []\T1/pcr/m/n/10 grid.group() []\T1/
ptm/m/n/10 is to spec-ify both []\T1/pcr/m/n/10 src []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 dst []\T1/ptm/m/n/10 and com-bine
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[]\T1/ptm/m/n/10 is only drawn where it is NOT over-lapped by []\T1/pcr/m/n/10 
src[]\T1/ptm/m/n/10 . The fol-low-ing (ex-tended) Porter-
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[]\T1/pcr/m/n/10 "multiply"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "screen"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "overlay"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "darke
n"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lighten"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n
/10 "color.dodge"[]\T1/ptm/m/n/10 ,
[1090]
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 []  \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty
pe="luminance")[] 
[1091]
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 []  \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1
, "inches"),[] 
[1092] [1093] [1094] [1095] [1096]
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 []                                       \T1/pcr/m/n/9 children=vpList(viewpor
t(name="vp2"))))[] 
[1097] [1098]
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 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, width=0.25, height=0.25, just=
c("left", "bottom")))[] 
Underfull \hbox (badness 2799) in paragraph at lines 3756--3762
[]\T1/ptm/m/n/10 There are two hooks called []\T1/pcr/m/n/10 "before.grid.newpa
ge" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "grid.newpage" []\T1/ptm/m/n/10 (see
[1099] [1100]
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 []          \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border =
 NULL,[] 
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 []          \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border =
 NULL,[] 
[1101] [1102] [1103]
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 []                \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant
i-clockwise")[] 
[1104]
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 []                \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other 
anti-clockwise")[] 
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 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s
ame path, thus[] 
[1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115]
[1116]
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[]\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec
t de-scrib-ing seg-ments), but only
[1117] [1118] [1119] [1120]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1121] [1122]
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[]\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject
s are co-erced by
[1123]
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 []\T1/pcr/m/n/9 grid.text(quote(frac(e^{-x^2/2}, sqrt(2*pi))), x=x, y=y, rot=s
tats::runif(20, -45,45),[] 
[1124] [1125] [1126] [1127] [1128] [1129]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 gridCoords []\T1/ptm/m/n/10 a nu-meric ve
c-tor. For []\T1/pcr/m/n/10 gridGrobCoords []\T1/ptm/m/n/10 a list
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\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 "GridCoords" []\T1/ptm/m/n/10 ob-jects. For 
[]\T1/pcr/m/n/10 gridGTreeCoords []\T1/ptm/m/n/10 a list of ei-ther
[1130]
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[]\T1/ptm/m/n/10 Either a []\T1/pcr/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob
-ject (a list of lists with com-po-nents []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 an
d []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) or a
[1131] [1132] [1133]
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[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 grid.legend()[]\T1/ptm/m/n/10 : all the a
r-gu-ments above are passed to
[1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144]
[1145] [1146] [1147] [1148] [1149] [1150]
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 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r
ecurse=TRUE)[] 
[1151] [1152]
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 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip()
, device=TRUE) 
[1153]
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[]\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for 
use in []\T1/pcr/m/n/10 downViewport []\T1/ptm/m/n/10 or
[1154]
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[][][]\T1/pcr/m/n/10 viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 push
Viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 popViewport[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 seekViewport[][][][]\T1/ptm/m/n/10 ,
[1155] [1156] [1157]
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[1159] [1160]
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 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp
ar(col="red"))))[] 
[1161]) (./methods-pkg.tex [1162]
Chapter 7.
[1163] [1164]
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[]\T1/ptm/m/n/10 func-tion. See that doc-u-men-ta-tion also for de-tails of how
 co-erce meth-ods work. Use
[1165] [1166] [1167]
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[][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in-
for-ma-tion about group generic func-tions; [][]Meth-
[1168] [1169]
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 []\T1/pcr/m/n/9 ## vector.  The next method will always be the default, usuall
y a primitive.[] 
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 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w
ith no arguments[] 
[1170]
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 []\T1/pcr/m/n/9 ## Simple examples to illustrate callNextMethod with and witho
ut arguments[] 
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 []\T1/pcr/m/n/9 ## call f() with 2 arguments: callNextMethod passes both to th
e default method[] 
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 []\T1/pcr/m/n/9 ## call f() with 1 argument:  the default "B0" is not passed b
y callNextMethod[] 
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 []\T1/pcr/m/n/9 ## uses the class of the *argument* to consistently select the
 "B0" method[] 
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 []\T1/pcr/m/n/9 ## Although the argument here is numeric, it\TS1/pcr/m/n/9 '\T
1/pcr/m/n/9 s still the "B0" method that\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s called[
] 
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[1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183]
[1184] [1185] [1186]
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 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N
umber" method[] 
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 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE))
) # the default[] 
[1187] [1188]
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[]\T1/ptm/m/n/10 The ar-gu-ment to []\T1/pcr/m/n/10 insertSource []\T1/ptm/m/n/
10 can be an ob-ject of class
[1189] [1190] [1191]
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[]\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age
, use []\T1/pcr/m/n/10 where =
[1192] [1193]
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[]\T1/ptm/m/n/10 To see the ac-tual ta-ble (an [][][]\T1/pcr/m/n/10 environment
[][][][]\T1/ptm/m/n/10 ) used for meth-ods dis-patch, call
[1194] [1195] [1196]
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[]\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/pcr/m/n/10 setGeneric[][][] []\
T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c
re-ate ob-jects of class
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[]\T1/ptm/m/n/10 Object of class []\T1/pcr/m/n/10 "optionalMethod" []\T1/ptm/m/
n/10 (a union of classes []\T1/pcr/m/n/10 "function" []\T1/ptm/m/n/10 and
[1197]
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 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin
g(where))[] 
[1198] [1199] [1200]
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 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers
ions visible:[] 
[1201] [1202] [1203] [1204] [1205] [1206] [1207]
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[]\T1/ptm/m/n/10 Function []\T1/pcr/m/n/10 implicitGeneric() []\T1/ptm/m/n/10 r
e-turns the im-plicit generic ver-sion,
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[]\T1/pcr/m/n/10 setGenericImplicit() []\T1/ptm/m/n/10 turns a generic im-plici
t, []\T1/pcr/m/n/10 prohibitGeneric() []\T1/ptm/m/n/10 pre-vents
[1208] [1209]
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[]\T1/ptm/m/n/10 For a class (or class def-i-ni-tion, see [][][]\T1/pcr/m/n/10 
getClass[][][] []\T1/ptm/m/n/10 and the de-scrip-tion of class
[1210]
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[]
[1211] [1212]
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[] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit
ude =
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[]\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) {
[1213]
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[]\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character")
,
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[]\T1/ptm/m/n/10 A call to [][][]\T1/pcr/m/n/10 selectSuperClasses[][][](cl) []
\T1/ptm/m/n/10 re-turns a list of su-per-classes, sim-i-larly to
[1214] [1215] [1216] [1217] [1218] [1219]
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 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char
acter(), 
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 []                        \T1/pcr/m/n/10 prototype=NULL, package, validity, ac
cess,[] 
[1220]
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 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w
here) 
[1221] [1222] [1223]
Underfull \hbox (badness 2126) in paragraph at lines 4575--4583
[]\T1/ptm/m/n/10 For ad-di-tional in-for-ma-tion see doc-u-men-ta-tion for the 
im-por-tant steps: ([][][]\T1/pcr/m/n/10 setMethod[][][]()[]\T1/ptm/m/n/10 ,
[1224] [1225] [1226]
Underfull \hbox (badness 10000) in paragraph at lines 4812--4821
[]\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha
t eval-u-ates a call to
[1227] [1228] [1229] [1230]
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 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate
 inheritance[] 
[1231]
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 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli
er fails here)[] 
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 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho
d for classB[] 
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[1233]
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[]\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...)
[1234] [1235]
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[]\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p
assed to
[1236] [1237] [1238]
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[]\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o
ds for this class are found (us-ing
[1239] [1240] [1241] [1242] [1243] [1244]
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[]\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 $initialize() []\T1/p
tm/m/n/10 is equiv-a-lent to in-vok-ing the method
[1245] [1246]
Underfull \hbox (badness 1248) in paragraph at lines 6343--6347
[]\T1/ptm/m/n/10 Typically, a spe-cial-ized []\T1/pcr/m/n/10 $initialize() []\T
1/ptm/m/n/10 method car-ries out its own com-pu-ta-tions,
Underfull \hbox (badness 1960) in paragraph at lines 6343--6347
\T1/ptm/m/n/10 then in-vokes []\T1/pcr/m/n/10 $initFields() []\T1/ptm/m/n/10 to
 per-form stan-dard ini-tial-iza-tion, as shown in the
[1247]
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[]\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func-
tion re-turned by
[1248] [1249]
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[]\T1/ptm/m/n/10 Reference classes can have va-lid-ity meth-ods in the same sen
se as any S4 class (see
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[][][]\T1/pcr/m/n/10 setValidity[][][][]\T1/ptm/m/n/10 ). Such meth-ods are of-
ten a good idea; they will be called by call-ing
[1250]
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[1252] [1253]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.S4}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6972 \aliasA{S4}{S3Part}{S4}
                               [1254]
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 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement 
version of as().[] 
[1255] [1256]
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 []\T1/pcr/m/n/9 fit <- lm(sepal ~ Petal.Length + Petal.Width + Species, data =
 datasets::iris)[] 
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 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con
tains = "mlm")[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7228 \aliasA{Complex}{S4groupGeneric}{Complex}
                                                pdfTeX warning (ext4): destinat
ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate
 ignored
<to be read again> 
                   \relax 
l.7230 \aliasA{Logic}{S4groupGeneric}{Logic}
                                            pdfTeX warning (ext4): destination 
with the same identifier (name{Rfn.Math}) has been already used, duplicate igno
red
<to be read again> 
                   \relax 
l.7231 \aliasA{Math}{S4groupGeneric}{Math}
                                          pdfTeX warning (ext4): destination wi
th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7233 \aliasA{Ops}{S4groupGeneric}{Ops}
                                        pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor
ed
<to be read again> 
                   \relax 
l.7234 \aliasA{Summary}{S4groupGeneric}{Summary}
                                                 [1257]
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[]\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic 
can be ob-tained by call-ing
[1258]
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[]\T1/pcr/m/n/10 "abs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sign"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "sqrt"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ceiling"[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 "floor"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trunc"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cummax"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 2012) in paragraph at lines 7308--7320
[]\T1/pcr/m/n/10 "acosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "asin"[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 "asinh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "atan"[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 "atanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "exp"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expm1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "c
os"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "cosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cospi"[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 "sin"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sinh"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "sinpi"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tan"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanp
i"[]\T1/ptm/m/n/10 ,
[1259] [1260]
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[]\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t
ion ob-ject (see
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[]\T1/ptm/m/n/10 The typ-i-cal user level func-tion is []\T1/pcr/m/n/10 selectS
uperClasses() []\T1/ptm/m/n/10 which calls
[1261]
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 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d
itto w/o "Root"[] 
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[1273] [1274]
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 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact
er(), 
[1275]
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 []      \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class
Def =,[] 
[1276] [1277] [1278] [1279]
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 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col
umn matrices[] 
[1280] [1281] [1282]
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 []  \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns),
 "setCount")[] 
[1283] [1284] [1285]
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 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo
rmal arguments[] 
[1286] [1287] [1288] [1289]
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 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre
es of freedom[] 
[1290]
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 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
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 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
[1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299]
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[]\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance 
in R [][]$\T1/pcr/m/n/10 https : / / johnmchambers . su .
[1300]
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[]\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., []\T1/pcr/m/n/10 "functi
on" []\T1/ptm/m/n/10 for class
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[]\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl
ass, from the data part; e.g.,
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[]\T1/pcr/m/n/10 "functionWithTrace" []\T1/ptm/m/n/10 ex-tends []\T1/pcr/m/n/10
 "function"[]\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends
[1301] [1302] [1303] [1304]) (./parallel-pkg.tex
Chapter 8.
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[]\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/p
cr/m/n/10 "L\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][]
RNG[][][]: see
[1305]
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[]\T1/ptm/m/n/10 a vec-tor for []\T1/pcr/m/n/10 clusterApply []\T1/ptm/m/n/10 a
nd []\T1/pcr/m/n/10 clusterApplyLB[]\T1/ptm/m/n/10 , a ma-trix for
[1306] [1307]
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[]\T1/ptm/m/n/10 Two ex-cep-tions: []\T1/pcr/m/n/10 parLapply []\T1/ptm/m/n/10 
has ar-gu-ment []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 not []\T1/pcr/m/n/10 x []\T1
/ptm/m/n/10 for con-sis-tency with [][][]\T1/pcr/m/n/10 lapply[][][][]\T1/ptm/m
/n/10 , and
[1308]
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[]\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, 
So-laris and Win-dows.
[1309] [1310]
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[]\T1/ptm/m/n/10 Character vec-tor of ad-di-tional ar-gu-ments for []\T1/pcr/m/
n/10 Rscript []\T1/ptm/m/n/10 such as
[1311] [1312] [1313] [1314] [1315]
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[]\T1/pcr/m/n/10 mcfork []\T1/ptm/m/n/10 re-turns an ob-ject of the class []\T1
/pcr/m/n/10 "childProcess" []\T1/ptm/m/n/10 to the mas-ter and of class
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[]\T1/pcr/m/n/10 "masterProcess" []\T1/ptm/m/n/10 to the child: both the classe
s in-herit from class []\T1/pcr/m/n/10 "process"[]\T1/ptm/m/n/10 . If
[1316]
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 []         \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini
ty.list = NULL)[] 
[1317] [1318] [1319]
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 []\T1/pcr/m/n/9 mclapply(list(A, A, A), first, mc.preschedule = FALSE, affinit
y.list = affL)[] 
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 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch
eduled to suitable CPUs[] 
[1320] [1321]
Underfull \hbox (badness 5388) in paragraph at lines 1182--1187
[]\T1/pcr/m/n/10 mcparallel []\T1/ptm/m/n/10 re-turns an ob-ject of the class [
]\T1/pcr/m/n/10 "parallelJob" []\T1/ptm/m/n/10 which in-her-its from
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[]\T1/ptm/m/n/10 The be-haviour with []\T1/pcr/m/n/10 mc.set.seed = TRUE []\T1/
ptm/m/n/10 is dif-fer-ent only if
[1322]
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 []\T1/pcr/m/n/9 mccollect(p, wait = FALSE, 10) # will retrieve the result (sin
ce it\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s fast)[] 
[1323]
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 []                 \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif
(N, 1, 28)))[] 
[1324]
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 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct,  format = 
"%Y-%m-%d")))[] 
Underfull \hbox (badness 1577) in paragraph at lines 1400--1403
[]\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/pcr/m/n/10 
.Random.seed []\T1/ptm/m/n/10 when the
[1325]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 nextRNGStream []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 nextRNGSubStream[]\T1/ptm/m/n/10 , a value which can be as-signed to
[1326] [1327]) (./splines-pkg.tex [1328]
Chapter 9.
Underfull \hbox (badness 10000) in paragraph at lines 22--24
[]\T1/ptm/m/n/10 Douglas M. Bates \T1/pcr/m/n/10 <bates@stat.wisc.edu> \T1/ptm/
m/n/10 and William N. Ven-ables
[1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 498--498
 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height,  women, bSpl
ine = TRUE))[] 
[1337]
Underfull \hbox (badness 1043) in paragraph at lines 599--601
[]\T1/ptm/m/n/10 An in-te-ger be-tween 0 and []\T1/pcr/m/n/10 splineOrder(objec
t) - 1 []\T1/ptm/m/n/10 spec-i-fy-ing the
[1338] [1339]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 713--713
 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, 
sparse = TRUE)))[] 
[1340] [1341] [1342]) (./stats-pkg.tex
Chapter 10.
[1343]
Underfull \hbox (badness 1077) in paragraph at lines 71--74
[]\T1/pcr/m/n/10 .MFclass() []\T1/ptm/m/n/10 re-turns a char-ac-ter string, one
 of []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ordered"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "factor"[]\T1/ptm/m/n/10 ,
Overfull \hbox (69.18036pt too wide) in paragraph at lines 91--91
 []\T1/pcr/m/n/9 (xl <- .getXlevels(terms(mf), mf)) # a list with one entry " $
 Species" with 3 levels:[] 
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 []  \T1/pcr/m/n/9 identical(.getXlevels(terms(mc), mc), xl[0]) # a empty named
 list, as no factors[] 
[1344] [1345] [1346] [1347] [1348]
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 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea
rson Chi-square[] 
[1349]
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 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = 
FALSE) 
[1350] [1351] [1352] [1353] [1354] [1355]
Underfull \hbox (badness 1024) in paragraph at lines 901--903
[]\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/pcr/m/n/10 l
m []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for
[1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366]
[1367]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1645--1645
 []          \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm 
= TRUE)[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1648--1648
 []          \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm 
= TRUE)[] 
[1368] [1369]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1795--1795
 []                 \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n
a.rm=na.)$y),[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 1807--1807
 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$y) # warning, can be avoided by
 specifying \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ties=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[
] 
[1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380]
[1381] [1382] [1383]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2822--2822
 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F
ALSE) 
[1384] [1385] [1386] [1387]
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 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co
l = "green")[] 
[1388] [1389] [1390]
Underfull \hbox (badness 10000) in paragraph at lines 3281--3283
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo
geneity of
[1391]
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 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = 
FALSE)[] 
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 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = 
FALSE)[] 
[1392] [1393] [1394] [1395] [1396]
Package amsmath Warning: Foreign command \atopwithdelims;
(amsmath)                \frac or \genfrac should be used instead
(amsmath)                 on input line 3670.
[1397]
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 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = "
log density",[] 
[1398] [1399] [1400] [1401]
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 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit
df = 0) 
[1402] [1403] [1404] [1405] [1406]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4304--4304
 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4305--4305
 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
[1407] [1408] [1409]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4546--4546
 []\T1/pcr/m/n/9 chisq.test(x, p = p)            #               maybe doubtful
, but is ok![] 
[1410] [1411] [1412]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4721--4721
 []  \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df =
 df, ncp = L)),[] 
[1413]
Underfull \hbox (badness 3989) in paragraph at lines 4816--4823
[]\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 
(\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/
it/10 g[] \OT1/cmr/m/n/10 =
[1414] [1415] [1416]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 5044--5044
 []\T1/pcr/m/n/10 confint(object, parm, level = 0.95, trace = FALSE, test=c("LR
T", "Rao"), ...)[] 
[1417] [1418] [1419]
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 []\T1/pcr/m/n/9 constrOptim(c(-1.2,0.9), fr, grr, ui = rbind(c(-1,0), c(0,-1))
, ci = c(-1,-1))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5220--5220
 []\T1/pcr/m/n/9 constrOptim(c(.5,0), fr, grr, ui = rbind(c(-1,0), c(1,-1)), ci
 = c(-0.9,0.1))[] 
[1420] [1421] [1422]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5442--5442
 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works
 with these :[] 
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 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil
ter")) 
[1423] [1424] [1425]
Underfull \hbox (badness 1436) in paragraph at lines 5670--5675
[]\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i
ng co-vari-ances
Underfull \hbox (badness 1377) in paragraph at lines 5670--5675
\T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi
-a-tion of)
Underfull \hbox (badness 1448) in paragraph at lines 5670--5675
\T1/ptm/m/n/10 one of the strings []\T1/pcr/m/n/10 "everything"[]\T1/ptm/m/n/10
 , []\T1/pcr/m/n/10 "all.obs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "complete.obs"
[]\T1/ptm/m/n/10 ,
[1426] [1427] [1428]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5871--5871
 []         \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE,
 ...)[] 
[1429] [1430] [1431]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 6038--6038
 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center =
 TRUE, 
[1432] [1433] [1434]
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 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter =
 NULL) 
[1435]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 6330--6330
 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en
v = parent.frame())[] 
[1436] [1437] [1438] [1439]
Underfull \hbox (badness 5954) in paragraph at lines 6593--6595
[]\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn
, see
[1440] [1441]
Underfull \hbox (badness 2503) in paragraph at lines 6674--6677
[]\T1/ptm/m/n/10 Objects of class []\T1/pcr/m/n/10 "hclust" []\T1/ptm/m/n/10 ca
n be con-verted to class []\T1/pcr/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing 
method
Underfull \hbox (badness 5563) in paragraph at lines 6678--6680
[]\T1/pcr/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g
ram []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also
Underfull \hbox (badness 1655) in paragraph at lines 6681--6686
\T1/ptm/m/n/10 has []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y [
]\T1/ptm/m/n/10 (and op-tional fur-ther ar-gu-ments) as branches. Note that be-
fore \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.1.2,
Underfull \hbox (badness 7238) in paragraph at lines 6717--6720
[][][]\T1/pcr/m/n/10 dendrapply[][][] []\T1/ptm/m/n/10 for ap-ply-ing a func-ti
on to \T1/ptm/m/it/10 each \T1/ptm/m/n/10 node. [][][]\T1/pcr/m/n/10 order.dend
rogram[][][] []\T1/ptm/m/n/10 and
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6729--6729
 []\T1/pcr/m/n/9 str(dend1, max.level = 2, last.str =  "\TS1/pcr/m/n/9 '\T1/pcr
/m/n/9 ") # only the first two sub-levels[] 
[1442]
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 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, 
type = "tr")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6767--6767
 []\T1/pcr/m/n/9 ## merge() all parts back (using default \TS1/pcr/m/n/9 '\T1/p
cr/m/n/9 height\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 instead of original one):[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6782--6782
 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h
oriz = TRUE)[] 
[1443] [1444] [1445] [1446]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 7067--7067
 []\T1/pcr/m/n/9 abline(h = 1/1022, v = range(x), lty=2); axis(2, at=1/1022, "1
/(2n-2)", las=1)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7072--7072
 []                     \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker
n = TRUE))))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1447]
[1448] [1449]
Underfull \vbox (badness 10000) has occurred while \output is active [1450]
[1451] [1452] [1453]
Underfull \hbox (badness 10000) in paragraph at lines 7472--7476
[]\T1/pcr/m/n/10 "maximum"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "manhattan"[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 "canberra"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "bi
nary" []\T1/ptm/m/n/10 or
[1454]
Underfull \hbox (badness 6493) in paragraph at lines 7574--7577
[]\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][]
\T1/pcr/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the
[1455] [1456]
Underfull \hbox (badness 10000) in paragraph at lines 7711--7714
[]\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/pcr/m/n/10 ht
tps : / / CRAN . R-[]project . org / view =
[1457] [1458] [1459] [1460] [1461] [1462]
Underfull \hbox (badness 10000) in paragraph at lines 8123--8128
[]\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences []
\T1/pcr/m/n/10 x[t][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 x[t-1][]\T1/ptm/m/n/10 ,
 ...,
[1463] [1464] [1465] [1466] [1467] [1468]
Underfull \hbox (badness 1210) in paragraph at lines 8478--8480
[]\T1/ptm/m/n/10 Components of []\T1/pcr/m/n/10 control []\T1/ptm/m/n/10 can al
so be sup-plied as named ar-gu-ments to
[1469] [1470] [1471] [1472] [1473] [1474]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 8946--8946
 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q
uasipoisson())[] 
[1475]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 8991--8991
 []\T1/pcr/m/n/9 ## Not run: glm(y ~ x, family = quasi(variance = "mu^3", link 
= "log")) # fails[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 8994--8994
 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit
"), start = c(0,1))[] 
[1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9574--9574
 []           \T1/pcr/m/n/9 dimnames = list(income = c("< 15k", "15-25k", "25-4
0k", "> 40k"),[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 9575--9575
 []                     \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod
erateS", "VeryS")))[] 
[1484] [1485] [1486]
Underfull \hbox (badness 7291) in paragraph at lines 9755--9757
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test 
of homogeneity of
[1487] [1488] [1489] [1490] [1491] [1492] [1493]
Underfull \hbox (badness 6944) in paragraph at lines 10248--10254
[][][]\T1/pcr/m/n/10 ftable.formula[][][] []\T1/ptm/m/n/10 for the for-mula in-
ter-face (which al-lows a []\T1/pcr/m/n/10 data = . []\T1/ptm/m/n/10 ar-gu-ment
);
[1494] [1495] [1496]
Underfull \hbox (badness 3758) in paragraph at lines 10462--10465
[]\T1/ptm/m/n/10 See also [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Incomplete _ gamma _ function$[][]\T1/ptm/m/n/10 , or
[1497] [1498] [1499] [1500]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 10707--10707
 []    \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL
, ...)[] 
Underfull \hbox (badness 4518) in paragraph at lines 10733--10738
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1501]
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[]\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth
od
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[]\T1/ptm/m/n/10 A spec-i-fi-ca-tion of the form []\T1/pcr/m/n/10 first:second 
[]\T1/ptm/m/n/10 in-di-cates the set of terms ob-tained by tak-
[1502]
Underfull \hbox (badness 10000) in paragraph at lines 10878--10881
[]\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][][]\T1/pcr/m/n/10 coeffic
ients[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 effects[]\T1/ptm/m/n/10 , []\T1/
pcr/m/n/10 fitted.values []\T1/ptm/m/n/10 and
[1503] [1504] [1505]
Underfull \hbox (badness 2142) in paragraph at lines 11095--11098
[]\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p
tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1
0 dev \OMS/cmsy/m/n/10 ^^@
[1506]
Underfull \hbox (badness 1708) in paragraph at lines 11176--11180
[]\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter-
na-tives are:
[1507]
Underfull \hbox (badness 10000) in paragraph at lines 11218--11224
[][][]\T1/pcr/m/n/10 glm[][][] []\T1/ptm/m/n/10 for com-put-ing []\T1/pcr/m/n/1
0 glm.obj[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 anova.glm[][][][]\T1/ptm/m/n/1
0 ; the cor-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions,
Underfull \hbox (badness 1418) in paragraph at lines 11256--11261
[]\T1/pcr/m/n/10 "average" []\T1/ptm/m/n/10 (= UP-GMA), []\T1/pcr/m/n/10 "mcqui
tty" []\T1/ptm/m/n/10 (= WPGMA), []\T1/pcr/m/n/10 "median" []\T1/ptm/m/n/10 (=
[1508] [1509]
Underfull \hbox (badness 2635) in paragraph at lines 11389--11392
\T1/ptm/m/n/10 There are [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/n/10 , [][
][]\T1/pcr/m/n/10 plot[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 identify []\
T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 identify.hclust[][][][]\T1/ptm/m/n/10 )
 meth-ods and the
[1510] [1511] [1512]
Underfull \hbox (badness 1694) in paragraph at lines 11572--11575
[]\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these 
de-fault to
[1513]
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 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col
SideColors = cc,[] 
[1514]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 11701--11701
 []            \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 
0.1),[] 
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[]\T1/ptm/m/n/10 Character string to se-lect an []\T1/pcr/m/n/10 "additive" []\
T1/ptm/m/n/10 (the de-fault) or
[1515] [1516] [1517] [1518] [1519]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12038--12038
 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4)
, DEV.FUN = nD)[] 
[1520]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.12053 \aliasA{hat}{influence.measures}{hat}
                                             
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 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA
LSE),[] 
[1521]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12128--12128
 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE),
 ...)[] 
Underfull \hbox (badness 1062) in paragraph at lines 12181--12186
[]\T1/ptm/m/n/10 The op-tional []\T1/pcr/m/n/10 infl[]\T1/ptm/m/n/10 , []\T1/pc
r/m/n/10 res []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sd []\T1/ptm/m/n/10 ar-gu-me
nts are there to en-cour-age the use of these di-
Underfull \hbox (badness 1052) in paragraph at lines 12198--12200
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists 
mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing
[1522] [1523] [1524] [1525]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12453--12453
 []                 \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = 
TRUE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12454--12454
 []                 \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact
or)),[] 
[1526] [1527] [1528] [1529] [1530] [1531]
Underfull \hbox (badness 10000) in paragraph at lines 12785--12787
[]\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/pcr/m/n/10 solve.de
fault[][][] []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 SSinit =
Underfull \hbox (badness 4739) in paragraph at lines 12808--12810
[]\T1/ptm/m/n/10 the es-ti-mate at time $\OML/cmm/m/it/10 t \OMS/cmsy/m/n/10 ^^
@ \OT1/cmr/m/n/10 1$ \T1/ptm/m/n/10 of the state un-cer-tainty ma-trix $\OML/cm
m/m/it/10 Q$ \T1/ptm/m/n/10 (not up-dated by
[1532] [1533] [1534] [1535] [1536]
Underfull \hbox (badness 3417) in paragraph at lines 13121--13123
[]\T1/ptm/m/n/10 an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of class []\T1/pcr/
m/n/10 "kmeans"[]\T1/ptm/m/n/10 , typ-i-cally the re-sult []\T1/pcr/m/n/10 ob [
]\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 ob <-
Underfull \hbox (badness 2894) in paragraph at lines 13127--13131
[]\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f
ault method
Underfull \hbox (badness 1038) in paragraph at lines 13127--13131
\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 "Hartigan-Wong"[]\T1/ptm/m/n/10 ): if pos-i-ti
ve (or true), trac-ing in-for-ma-tion on the
[1537] [1538] [1539] [1540] [1541] [1542]
Underfull \hbox (badness 1496) in paragraph at lines 13555--13561
[]\T1/ptm/m/n/10 Gunar Schr�er and Di-et-rich Tren-kler (1995). Ex-act and Ran-
dom-iza-tion Dis-tri-bu-tions of
[1543] [1544] [1545] [1546]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13810--13810
 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c
ol = "gold")[] 
[1547]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13910--13910
 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep
t", "slope"))[] 
[1548]
Underfull \hbox (badness 4518) in paragraph at lines 13958--13963
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1549] [1550] [1551]
Underfull \hbox (badness 10000) in paragraph at lines 14158--14162
[]\T1/ptm/m/n/10 More []\T1/pcr/m/n/10 lm() []\T1/ptm/m/n/10 ex-am-ples are ava
il-able e.g., in [][][]\T1/pcr/m/n/10 anscombe[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 attitude[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 freeny[][][]
[]\T1/ptm/m/n/10 ,
[1552] [1553] [1554] [1555] [1556]
Underfull \hbox (badness 1163) in paragraph at lines 14500--14508
\T1/ptm/m/n/10 els, [][][]\T1/pcr/m/n/10 influence[][][] []\T1/ptm/m/n/10 (etc 
on that page) for re-gres-sion di-ag-nos-tics, [][][]\T1/pcr/m/n/10 weighted.re
siduals[][][][]\T1/ptm/m/n/10 ,
[1557] [1558]
Underfull \hbox (badness 4518) in paragraph at lines 14620--14625
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1559] [1560]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 14810--14810
 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 14811--14811
 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1561] [1562] [1563] [1564] [1565]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15154--15154
 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15155--15155
 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
[1566] [1567]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 15248--15248
 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra
nge(x))) 
[1568] [1569] [1570] [1571] [1572] [1573]
Underfull \hbox (badness 2726) in paragraph at lines 15657--15660
[]\T1/ptm/m/n/10 character; one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , [
]\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cauchit"[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 "cloglog"[]\T1/ptm/m/n/10 ,
[1574]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15751--15751
 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i
n R <= 3.5.0[] 
[1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 16381--16381
 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc
gp, data = esoph) 
[1585] [1586]
Underfull \hbox (badness 1490) in paragraph at lines 16530--16535
\T1/ptm/m/n/10 those spec-i-fied in []\T1/pcr/m/n/10 ... []\T1/ptm/m/n/10 which
 are re-cy-cled to the num-ber of data frame rows. Un-like
[1587]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 16566--16566
 []\T1/pcr/m/n/9 model.frame(dist ~ speed, data = cars, subset = speed < 10, z 
= log(dist))[] 
Underfull \hbox (badness 1648) in paragraph at lines 16602--16604
[]\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][
][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject,
[1588]
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 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum"
, b = contr.poly))[] 
[1589]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 16688--16688
 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con
tr.helmert"))[] 
[1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17243--17243
 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3))  # does not affect objects
 with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] 
[1598] [1599] [1600]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17476--17476
 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, 
s, prob = 0.4)),[] 
[1601] [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610]
Underfull \vbox (badness 10000) has occurred while \output is active [1611]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 18196--18196
 []\T1/pcr/m/n/9 ## adjusting the convergence test by adding \TS1/pcr/m/n/9 '\T
1/pcr/m/n/9 scaleOffset\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 to its denominator RSS:[]
 
Underfull \vbox (badness 10000) has occurred while \output is active [1612]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 18215--18215
 []\T1/pcr/m/n/9 ## Here, requiring close convergence, must use more accurate n
umerical differentiation,[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 18216--18216
 []\T1/pcr/m/n/9 ## as this typically gives Error: "step factor .. reduced belo
w \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 minFactor\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 .."[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 18220--18220
 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co
nverging on *some*):[] 
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 []\T1/pcr/m/n/9 ctr2 <- nls.control(nDcentral=TRUE, tol = 8e-8, # <- even smal
ler than above[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 18224--18224
 []        \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl
("^NixOS", osVersion)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18256--18256
 []              \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21
), th = b[1]))[] 
[1613] [1614] [1615]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18432--18432
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi
ty), DNase.2)[] 
[1616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18479--18479
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18526--18526
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
[1617] [1618] [1619] [1620]
Overfull \hbox (102.78088pt too wide) in paragraph at lines 18743--18743
 []             \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els
e 2), central = FALSE)[] 
[1621] [1622] [1623] [1624] [1625]
Underfull \hbox (badness 1248) in paragraph at lines 19062--19065
[]\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma
-tion to the gra-di-ent, on
Underfull \hbox (badness 1661) in paragraph at lines 19075--19079
[]\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i
t is un-able to re-duce
Underfull \hbox (badness 1478) in paragraph at lines 19083--19087
\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 control$trace []\T1/ptm/m/n/10 is pos-i-tive
. De-faults to ev-ery 10 it-er-a-tions for []\T1/pcr/m/n/10 "BFGS" []\T1/ptm/m/
n/10 and
[1626]
Underfull \hbox (badness 2042) in paragraph at lines 19141--19143
[]\T1/ptm/m/n/10 indicates an er-ror from the []\T1/pcr/m/n/10 "L-BFGS-B" []\T1
/ptm/m/n/10 method; see com-po-nent
[1627]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 19247--19247
 []      \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no
t* at boundary[] 
[1628]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19290--19290
 []     \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", 
axes = FALSE)[] 
Overfull \hbox (123.1803pt too wide) in paragraph at lines 19308--19308
 []\T1/pcr/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b
ut NM may be ok and "unavoidable",[] 
Overfull \hbox (96.18033pt too wide) in paragraph at lines 19311--19311
 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list(
warn.1d.NelderMead = FALSE)))[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 19331--19331
 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max
(interval), 
[1629]
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 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max
(interval),[] 
Underfull \hbox (badness 2564) in paragraph at lines 19369--19380
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 f []\T1/ptm/m/n/10 is never eva
l-u-ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m
/n/10 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/
10 tol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1082) in paragraph at lines 19369--19380
\T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately 
[]\T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) []\T1/ptm/m/n/10 and $\OML
/cmm/m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa
[1630]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19432--19432
 []\T1/pcr/m/n/9 f  <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 
1)), 10), 10)[] 
[1631] [1632] [1633]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19662--19662
 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 
1, lty = 1:6,[] 
[1634] [1635]
Underfull \hbox (badness 1337) in paragraph at lines 19773--19776
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1636] [1637] [1638] [1639] [1640]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20091--20091
 []      \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 
1.5),[] 
[1641] [1642]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 20178--20178
 []       \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s dist
 vs Leverage* " * h[ii] / (1 - h[ii]))),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 20180--20180
 []              \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else 
points,[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 20182--20182
 []     \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact
ive(),[] 
[1643]
Underfull \hbox (badness 10000) in paragraph at lines 20242--20248
\T1/pcr/m/n/10 "bottomleft", legend = "Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s di
stance", lty = cook.lty,
Underfull \hbox (badness 10000) in paragraph at lines 20242--20248
\T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp
Underfull \hbox (badness 10000) in paragraph at lines 20250--20256
[]\T1/ptm/m/n/10 the num-ber of ro-bust-ness it-er-a-tions, the ar-gu-ment []\T
1/pcr/m/n/10 iter []\T1/ptm/m/n/10 in
Underfull \hbox (badness 10000) in paragraph at lines 20261--20264
[]\T1/ptm/m/n/10 a nu-meric vec-tor of length 1 or 2, to be used in []\T1/pcr/m
/n/10 ylim <-
[1644] [1645] [1646] [1647]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 20528--20528
 []\T1/pcr/m/n/9 nlmod <- nls(y ~  Const + A * exp(B * x), start=list(Const=100
, A=10, B=1))[] 
[1648] [1649]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20659--20659
 []                    \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3,
 ...)[] 
[1650]
Underfull \hbox (badness 1194) in paragraph at lines 20669--20672
[]\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting
 of the con-fi-dence
[1651]
Underfull \hbox (badness 1107) in paragraph at lines 20727--20729
[]\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate []
\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . De-faults to
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20782--20782
 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange
") # all colors[] 
[1652]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 20789--20789
 []\T1/pcr/m/n/9 legend(2.5, 1.9, paste("f =", c(0, 0.2, 1)), col = 1:3, lty = 
1, y.intersp = 1)[] 
[1653]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20883--20883
 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma
r..., oma...)")[] 
[1654] [1655]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 21011--21011
 []    \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE)  # no 
cancellation[] 
[1656]
Underfull \hbox (badness 7740) in paragraph at lines 21074--21076
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Exact Poisson test" [
]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 "Comparison of
[1657]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 21122--21122
 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = 
FALSE) 
Underfull \hbox (badness 10000) in paragraph at lines 21178--21180
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 poly(*, simple=TRUE)[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 polym(*, coefs=<non-NULL>)[]\T1/ptm/m/n/10 , and
[1658]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 21215--21215
 [] \T1/pcr/m/n/9 zm <- zapsmall(polym (    1:4, c(1, 4:6),  degree = 3)) # or 
just poly():[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 21220--21220
 []\T1/pcr/m/n/9 ## poly(<matrix>, df) --- used to fail till July 14 (vive la F
rance!), 2017:[] 
[1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669]
[1670] [1671]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 22074--22074
 []          \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e
xactly equal typically[] 
[1672]
Underfull \hbox (badness 6859) in paragraph at lines 22141--22148
[][][]\T1/pcr/m/n/10 predict.glm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p
redict.lm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.loess[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.nls[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 predict.poly[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 22152--22158
[]\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/pcr/m/n/10 predict.ar[
][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 ,
[1673] [1674] [1675] [1676] [1677]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 22440--22440
 []        \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N
A", "NAwarn"),[] 
Underfull \hbox (badness 10000) in paragraph at lines 22466--22469
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string
 spec-i-fy-ing what should hap-pen in the
Underfull \hbox (badness 10000) in paragraph at lines 22466--22469
\T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob
ject$rank <
[1678]
Underfull \hbox (badness 5832) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 cases, i.e., vec-tors not in the same pre-dic-tor sub-space as t
he
Underfull \hbox (badness 8151) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 orig-i-nal data (with tol-er-ance []\T1/pcr/m/n/10 tol[]\T1/ptm/
m/n/10 ). In that case, the non-
Underfull \hbox (badness 1184) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 estimable in-dices are also re-turned as at-tribute []\T1/pcr/m/
n/10 "non-estim" []\T1/ptm/m/n/10 (see
[1679] [1680] [1681] [1682] [1683] [1684] [1685]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 22939--22939
 []         \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign
 = TRUE, ...)[] 
[1686] [1687] [1688] [1689]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 23223--23223
 []             \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x
)) &&[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 23224--23224
 []                          \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr("
, "p-v"),[] 
[1690] [1691] [1692] [1693] [1694] [1695] [1696]
Underfull \hbox (badness 1337) in paragraph at lines 23628--23634
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1697] [1698] [1699] [1700] [1701]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 23940--23940
 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim
 = c(-31, 31),[] 
[1702] [1703] [1704] [1705]
Underfull \hbox (badness 10000) in paragraph at lines 24253--24255
[]\T1/ptm/m/n/10 Wicklin, R. (2017) Sam-ple quan-tiles: A com-par-i-son of 9 de
f-i-ni-tions;
Underfull \hbox (badness 10000) in paragraph at lines 24253--24255
\T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co
ntent / iml / 2017 / 05 / 24 /
Underfull \hbox (badness 10000) in paragraph at lines 24256--24257
[]\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or
g / wiki / Quantile # Estimating _
[1706] [1707]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 24367--24367
 []       \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact"
, "compact"),[] 
[1708]
Underfull \hbox (badness 1028) in paragraph at lines 24425--24428
[]\T1/ptm/m/n/10 further ar-gu-ments to be passed to or from meth-ods; for []\T
1/pcr/m/n/10 write() []\T1/ptm/m/n/10 and
[1709] [1710]
Underfull \hbox (badness 10000) in paragraph at lines 24540--24543
[]\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by
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[]\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 reorder[][][]()[]\T1/ptm/m/n/10 
, is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l
evels =
[1711]
Underfull \hbox (badness 7099) in paragraph at lines 24659--24661
[]\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 relevel[][][]()[]\T1/ptm/m/n/10 
, is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l
evels =
[1712]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24694--24694
 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, 
decreasing=TRUE))[] 
[1713]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24770--24770
 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 
10:1, mean)")[] 
[1714] [1715]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 24887--24887
 []\T1/pcr/m/n/10 #         varying = ___,  # list / matrix / vector (use with 
care)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 24888--24888
 []\T1/pcr/m/n/10 #         v.names = ___,  # vector of variable names in long 
format[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 24889--24889
 []\T1/pcr/m/n/10 #         timevar, times, # name / values of constructed time
 variable[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 24890--24890
 []\T1/pcr/m/n/10 #         idvar, ids)     # name / values of constructed id v
ariable[] 
[1716] [1717]
Underfull \hbox (badness 10000) in paragraph at lines 25047--25052
[][][]\T1/pcr/m/n/10 stack[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 aperm[]
[][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 relist[][][] []\T1/ptm/m/n/10 for r
e-shap-ing the re-sult of [][][]\T1/pcr/m/n/10 unlist[][][][]\T1/ptm/m/n/10 . [
][][]\T1/pcr/m/n/10 xtabs[][][] []\T1/ptm/m/n/10 and
Underfull \hbox (badness 2495) in paragraph at lines 25047--25052
[][][]\T1/pcr/m/n/10 as.data.frame.table[][][] []\T1/ptm/m/n/10 for cre-at-ing 
con-tin-gency ta-bles and con-vert-ing them back to
[1718]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 25058--25058
 []\T1/pcr/m/n/9 ## long to wide (direction = "wide") requires idvar and timeva
r at a minimum[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 25059--25059
 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev
ar = "time")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 25078--25078
 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide
", v.names = "x")[] 
[1719]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 25183--25183
 []       \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na.
omit", "fail"),[] 
[1720]
Underfull \hbox (badness 1033) in paragraph at lines 25226--25232
\T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 
where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/
m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where
Underfull \hbox (badness 10000) in paragraph at lines 25247--25250
[]\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/pcr/m/n/10 y = r
unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/pcr/m/n/10 y[j] =
[1721]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 25325--25325
 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi
ans Example")[] 
[1722]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 25351--25351
 []\T1/pcr/m/n/9 ## An example with initial NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s -
 used to fail badly (notably for "Turlach"):[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 25363--25363
 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1
:5, xlab = NA,[] 
[1723] [1724] [1725] [1726] [1727] [1728] [1729]
Underfull \hbox (badness 6268) in paragraph at lines 25822--25827
[][][]\T1/pcr/m/n/10 SSasympOrig[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 S
Sbiexp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfol[][][][]\T1/ptm/m/n/10
 , [][][]\T1/pcr/m/n/10 SSfpl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSgo
mpertz[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSlogis[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 SSmicmen[][][][]\T1/ptm/m/n/10 ,
[1730] [1731] [1732] [1733]
Underfull \hbox (badness 1867) in paragraph at lines 26032--26034
[]\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. 
Passed to
Underfull \hbox (badness 10000) in paragraph at lines 26048--26052
[]\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 NN <- [][]nobs[][][](object, use.fallba
ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 PP
Underfull \hbox (badness 10000) in paragraph at lines 26048--26052
\T1/pcr/m/n/10 <- sum(!is.na([][]coef[][][](object))) []\T1/ptm/m/n/10 -- where
 in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was
Overfull \hbox (20.58041pt too wide) in paragraph at lines 26090--26090
 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165  = "Residual standard error"  printed fr
om summary(lm1)[] 
[1734]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 26097--26097
 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole
rance=1e-15))[] 
[1735] [1736]
Underfull \hbox (badness 2495) in paragraph at lines 26279--26288
[]\T1/ptm/m/n/10 For an in-verse gaus-sian GLM the model as-sumed is $\OML/cmm/
m/it/10 IG\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 ^^V[]; ^^Uw[]\OT1/cmr/m/n/10 )$ \T1
/ptm/m/n/10 (see [][]$\T1/pcr/m/n/10 https : / / en .
[1737] [1738] [1739]
Underfull \hbox (badness 2197) in paragraph at lines 26425--26428
[]\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion,
 []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and
Overfull \hbox (24.78088pt too wide) in paragraph at lines 26445--26445
 []       \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends
 = FALSE)[] 
Underfull \hbox (badness 1412) in paragraph at lines 26452--26454
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui
red; de-faults to
[1740]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 26537--26537
 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS
S"), smooth(x)))[] 
[1741]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 26562--26562
 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda 
= NULL, cv = FALSE, 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 26565--26565
 []              \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee
p.stuff = FALSE)[] 
[1742] [1743] [1744]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 26790--26790
 []    \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t
ol) ))[] 
Underfull \hbox (badness 2547) in paragraph at lines 26794--26800
[]\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/
10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in
g only
Overfull \hbox (4.38043pt too wide) in paragraph at lines 26841--26841
 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars)  &  smoothi
ng splines")[] 
[1745]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 26862--26862
 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # =
= unique(cars$speed)[] 
[1746] [1747] [1748]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 27054--27054
 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na.
fail, 
[1749] [1750] [1751] [1752]
Underfull \hbox (badness 10000) in paragraph at lines 27319--27324
\T1/ptm/m/n/10 This makes the spec-tral den-sity a den-sity over the range []\T
1/pcr/m/n/10 (-frequency(x)/2,
[1753] [1754]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 27433--27433
 []          \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC"
, "hyman"),[] 
[1755] [1756]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 27615--27615
 []\T1/pcr/m/n/9 set.seed(8); x <- sort(round(rnorm(30), 1)); y <- round(sin(pi
 * x) + rnorm(30)/10, 3)[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 27621--27621
 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean))  
for when x has ties")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 27630--27630
 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "monoH.FC")(x), add = TRUE, c
ol = 3, n = 1001)[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 27631--27631
 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman")   (x), add = TRUE, c
ol = 4, n = 1001)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1757]
Underfull \hbox (badness 2922) in paragraph at lines 27700--27705
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1758]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 27737--27737
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5.2), xlim
 = c(-.3, 5),[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 27740--27740
 []                    \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^
{-e^{phi[3]}*~x}}))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 27749--27749
 []         \T1/pcr/m/n/9 c(0  ,  1   ), 1, length = 0.08, angle = 25); text(0.
5, 1, quote(1))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 27750--27750
 []  \T1/pcr/m/n/9 y0 <- 1 + 4*exp(-3/4) ; t.5 <- log(2) / exp(-3/4) ; AR2 <- 3
 # (Asym + R0)/2[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 27754--27754
 []  \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi
[1]+phi[2],2), phi[1]),[] 
[1759]
Underfull \hbox (badness 3240) in paragraph at lines 27808--27811
[][][]\T1/pcr/m/n/10 nls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 selfStart
[][][][]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 example(SSasympOff) []\T1/ptm/m/n/10 
gives graph show-ing the []\T1/pcr/m/n/10 SSasympOff
[1760]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 27829--27829
 []  \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOff(xx, Asym = 5, lrc = log(
0.4), c0 = 3/4)) )[] 
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 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim
 = c(-1, 8),[] 
[1761]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27915--27915
 []  \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOrig(xx, Asym = 5, lrc = log
(log(2)))) )[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27919--27919
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim =
 c(-1/4, 5),[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 27929--27929
 []  \T1/pcr/m/n/9 axis(2, at = 5*c(1/2,1), labels= expression(frac(phi[1],2), 
phi[1]), pos=0, las=1)[] 
Overfull \hbox (106.98032pt too wide) in paragraph at lines 27934--27934
 []       \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5]
 == frac(log(2), e^{phi[2]})}),[] 
[1762]
Underfull \hbox (badness 2922) in paragraph at lines 27970--27976
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27992--27992
 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat
a = Indo.1),[] 
[1763]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28008--28008
 []  \T1/pcr/m/n/9 legend("topright", c("y1+y2", "y1 = 3.5 * exp(-4*x)", "y2 = 
1.5 * exp(-x)"),[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 28022--28022
 []\T1/pcr/m/n/9 ## Fails by default (scaleOffset=0) on most platforms {also af
ter increasing maxiter !}[] 
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 []        \T1/pcr/m/n/9 nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d
atN, trace=TRUE)[] 
Overfull \hbox (128.58029pt too wide) in paragraph at lines 28030--28030
 []            \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=
1e-11, nDcentral=TRUE), trace=TRUE)[] 
[1764] [1765]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 28141--28141
 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK
a)*input)) 
[1766]
Underfull \hbox (badness 2922) in paragraph at lines 28203--28208
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1767]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 28241--28241
 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm
id", phi[4] == "scal")))[] 
Underfull \hbox (badness 2922) in paragraph at lines 28290--28295
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1768]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28321--28321
 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = "
red", lwd=2)[] 
Underfull \hbox (badness 2922) in paragraph at lines 28355--28360
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1769]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28380--28380
 []\T1/pcr/m/n/9 ## Initial values are in fact the converged one here, "Number 
of iter...: 0" :[] 
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 []\T1/pcr/m/n/9 fm2 <- update(fm1, control=nls.control(tol = 1e-9, warnOnly=TR
UE), trace = TRUE)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28404--28404
 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] 
== "scal")))[] 
[1770]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 28414--28414
 []  \T1/pcr/m/n/9 segments(c(2,2.6,2.6), c(0,  2.5,3.5),   # NB.  SSlogis(x = 
xmid = 2) = 2.5[] 
Underfull \hbox (badness 2922) in paragraph at lines 28449--28454
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28471--28471
 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt),
 digits = 3)[] 
[1771]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 28489--28489
 []       \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS
micmen model")[] 
[1772]
Underfull \hbox (badness 6493) in paragraph at lines 28541--28546
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 x[]\
T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28569--28569
 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28571--28571
 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 28575--28575
 []\T1/pcr/m/n/9 plot(weight ~ Time, Chick.6, xlim = c(0, 21), main = "SSweibul
l() fit to Chick.6")[] 
Overfull \hbox (69.18036pt too wide) in paragraph at lines 28578--28578
 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f
m1)[["Drop"]]), lty = 3)[] 
[1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783]
[1784] [1785] [1786]
Underfull \hbox (badness 3396) in paragraph at lines 29452--29454
[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.glm"[]\T1/ptm/m/
n/10 , usu-ally, a re-sult of a call to
[1787] [1788] [1789]
Underfull \hbox (badness 2237) in paragraph at lines 29631--29633
[]\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1
/pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if
[1790] [1791]
Underfull \hbox (badness 2591) in paragraph at lines 29795--29797
[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.nls"[]\T1/ptm/m/
n/10 , usu-ally the re-sult of a call to
[1792]
Underfull \hbox (badness 2237) in paragraph at lines 29841--29844
[]\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1
/pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if
[1793]
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 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t
race = FALSE) 
[1794] [1795]
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[]\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m
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[1796]
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[1797]
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[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1798] [1799] [1800] [1801]
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 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, 
main = t.tit,[] 
[1802]
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mon",[] 
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[]\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial
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[1803]
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 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s
pan.smth = 1/4)[] 
[1804] [1805]
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 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = 
TRUE,[] 
[1806] [1807] [1808]
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- nrow)[] 
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[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 toeplitz(x, *)[]\T1/ptm/m/n/10 : the firs
t col-umn of the Toeplitz ma-trix; for
[1809]
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 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex .
.) {also warning}:[] 
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 []   \T1/pcr/m/n/9 colnames(W) <- paste0(",", if(n <= 9) 1:n else c(1:9, lette
rs[seq_len(n-9)]))[] 
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 []\T1/pcr/m/n/9 y.hat <- W. %*% y # y.hat := smoothed(y) ("mass preserving" ->
 longer than y)[] 
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 []\T1/pcr/m/n/9 plot(x,y, type="b", xlim=c(1,m)); curve(f(x), 1,n, col="gray",
 lty=2, add=TRUE)[] 
[1810]
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else "ts",[] 
[1811]
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[]\T1/pcr/m/n/10 is.mts(x) []\T1/ptm/m/n/10 tests if an ob-ject []\T1/pcr/m/n/1
0 x []\T1/ptm/m/n/10 is a mul-ti-vari-ate time se-ries, i.e., ful-fills []\T1/p
cr/m/n/10 is.ts(x)[]\T1/ptm/m/n/10 ,
[1812] [1813] [1814] [1815] [1816]
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 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE) 
[1817]
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 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1818] [1819] [1820] [1821]
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v = FALSE,[] 
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 = 0)[] 
[1822] [1823]
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 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature
s: --------------[] 
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 []\T1/pcr/m/n/9 ## where as  \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 extendInt="yes"\TS1
/pcr/m/n/9 '  \T1/pcr/m/n/9 simply first enlarges the search interval:[] 
[1824] [1825] [1826] [1827]
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[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1836] [1837] [1838]
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 []\T1/pcr/m/n/9 wilcox.test( 4:2,      3:1,     paired=TRUE) # Warning:  canno
t compute exact p-value with ties[] 
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 []\T1/pcr/m/n/9 wilcox.test((4:2)/10, (3:1)/10, paired=TRUE, digits.rank = 9) 
# same ties as (4:2, 3:1)[] 
[1839] [1840]
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 = getOption("ts.eps"), ...)[] 
[1841]
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ALSE, 
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 []      \T1/pcr/m/n/10 exclude = if(!addNA) c(NA, NaN), drop.unused.levels = F
ALSE)[] 
[1842] [1843] [1844] [1845]) (./stats4-pkg.tex [1846]
Chapter 11.
[1847] [1848] [1849]
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 []    \T1/pcr/m/n/9 -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/exp(lxhalf))
, log = TRUE))[] 
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er to 0 and 1[] 
[1851] [1852] [1853] [1854]pdfTeX warning (ext4): destination with the same ide
ntifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored
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                                                   [1855] [1856] [1857])
(./tcltk-pkg.tex [1858]
Chapter 12.
[1859] [1860] [1861] [1862] [1863]
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 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca
llback ref in here[] 
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[]\T1/pcr/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i
ng any Tk or Tcl com-mand by sim-ply run-ning
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 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0.
0", "end"))))[] 
[1873] [1874] [1875] [1876] [1877]
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[][][]\T1/pcr/m/n/10 select.list[][][] []\T1/ptm/m/n/10 (a text ver-sion ex-cep
t on Win-dows and the ma-cOS GUI), [][][]\T1/pcr/m/n/10 menu[][][] []\T1/ptm/m/
n/10 (whose
[1878]) (./tools-pkg.tex
Chapter 13.
[1879]
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 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for
 new methods.[] 
[1880]
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[]\T1/pcr/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will
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[1881]
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ing warning)[] 
[1882]
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[]\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t
o ren-der each of the 12
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\T1/ptm/m/n/10 types of bib-li-o-graphic en-try sup-ported by [][][]\T1/pcr/m/n
/10 bibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-
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\T1/ptm/m/n/10 tines de-scribed be-low. The for-mer must be named []\T1/pcr/m/n
/10 formatArticle[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 formatBook[]\T1/ptm/m/n/10
 ,
[1883]
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ngle = TRUE, 
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[]\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin
e to use. Over-rides any
[1884] [1885]
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\T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s
ub-di-rec-tory
[1886] [1887] [1888] [1889] [1890] [1891]
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\T1/ptm/m/n/10 by \T1/pcr/m/n/10 \donttest\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \dont
diff \T1/ptm/m/n/10 or \T1/pcr/m/n/10 \dontshow\T1/ptm/m/n/10 , and \T1/pcr/m/n
/10 \title \T1/ptm/m/n/10 re-placed by \T1/pcr/m/n/10 \section \T1/ptm/m/n/10 o
r
[1892]
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xz"),[] 
[1893]
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 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co
mpress == "none")[] 
[1894] [1895] [1896]
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E, ...)[] 
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 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU
E, ...)[] 
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[]\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v
erse de-pen-den-cies
[1897]
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[]\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a 
pre-vi-ous
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[]\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-
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\T1/ptm/m/n/10 ing []\T1/pcr/m/n/10 summarize_check_packages_in_dir_results []\
T1/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 check_packages_in_dir []\T1/ptm/m/n/10 re-turns an ob-ject in-
her-it-ing from class
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[]\T1/pcr/m/n/10 codocClasses []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 codocData [
]\T1/ptm/m/n/10 re-turn ob-jects of class []\T1/pcr/m/n/10 "codocClasses" []\T1
/ptm/m/n/10 and
[1900] [1901] [1902]
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[]\T1/pcr/m/n/10 CRAN_package_db() []\T1/ptm/m/n/10 re-turns a data frame with 
char-ac-ter columns con-tain-ing most
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\T1/ptm/m/n/10 `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' meta-data for the cu
r-rent pack-ages in the CRAN pack-age repos-i-
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\T1/ptm/m/n/10 tory, in-clud-ing in par-tic-u-lar the De-scrip-tion and Main-ta
iner in-for-ma-tion not pro-vided by
[1903]
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[]\T1/ptm/m/n/10 Internal func-tions []\T1/pcr/m/n/10 CRAN_aliases_db[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CR
AN_current_db []\T1/ptm/m/n/10 and
[1904]
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hances"))[] 
[1905]
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
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\T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1
0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor,
[1906] [1907] [1908]pdfTeX warning (ext4): destination with the same identifier
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[1912]
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 loadPkgRdMacros []\T1/ptm/m/n/10 func-tio
n first looks for an []\T1/pcr/m/n/10 "RdMacros" []\T1/ptm/m/n/10 en-try in the
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[1913]
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[]\T1/ptm/m/n/10 Package main-tain-ers can use these func-tions to em-ploy user
 and site spe-cific com-pi-la-
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\T1/ptm/m/n/10 tion set-tings also for com-pi-la-tions not us-ing \T1/phv/m/n/1
0 R\T1/ptm/m/n/10 's mech-a-nisms (in par-tic-u-lar, cus-tom com-
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\T1/ptm/m/n/10 pi-la-tions in sub-di-rec-to-ries of `\T1/pcr/m/n/10 src\T1/ptm/
m/n/10 '), e.g., by adding con-fig-ure code call-ing \T1/phv/m/n/10 R \T1/ptm/m
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\T1/ptm/m/n/10 This al-lows e.g. the trans-la-tions shipped in \T1/phv/m/n/10 R
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[]\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca
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[1915]
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[]\T1/ptm/m/n/10 The de-fault method of []\T1/pcr/m/n/10 as.Rconcordance []\T1/
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[]\T1/pcr/m/n/10 followConcordance []\T1/ptm/m/n/10 is used when a file is tran
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\T1/ptm/m/n/10 trans-for-ma-tion records a con-cor-dance in the file which is r
ead as []\T1/pcr/m/n/10 prevConcordance[]\T1/ptm/m/n/10 .
[1916]
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ong", 
[1917]
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
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\T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1
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 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster"
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[1918]
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 []    \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations
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[1919] [1920] [1921] [1922]
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[1923]
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[]\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion 3.2.0, User-d
efined macros may be given in a sep-a-rate file us-ing
[1924]
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ml", pkg)),[] 
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athjax-config.js"),[] 
[1925] [1926] [1927]
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[1928]
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[1929] [1930] [1931]
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[]\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-
tor of links, as re-turned by
[1932] [1933] [1934] [1935] [1936]
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s", "system.Rd"))[] 
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[]\T1/ptm/m/n/10 By de-fault, the tags \T1/pcr/m/n/10 \S3method\T1/ptm/m/n/10 ,
 \T1/pcr/m/n/10 \S4method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \command\T1/ptm/m/n/10
 , \T1/pcr/m/n/10 \docType\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \email\T1/ptm/m/n/10 
,
[1937] [1938] [1939]
Underfull \hbox (badness 4108) in paragraph at lines 4103--4110
[]\T1/ptm/m/n/10 This func-tion starts the in-ter-nal HTTP server, which runs o
n the loop-back in-ter-face
[1940] [1941]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4204--4204
 []                      \T1/pcr/m/n/10 types = c("examples", "tests", "vignett
es"),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 4207--4207
 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter
net", "all"),[] 
Underfull \hbox (badness 10000) in paragraph at lines 4232--4234
[]\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run
,
[1942]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4287--4287
 []\T1/pcr/m/n/9 (prio <- sapply(as.vector(pNms), packageDescription, fields = 
"Priority"))[] 
[1943] [1944]
Underfull \hbox (badness 7832) in paragraph at lines 4388--4391
[]\T1/ptm/m/n/10 Where sup-ported ([]\T1/pcr/m/n/10 texi2dvi []\T1/ptm/m/n/10 5
.0 and later; []\T1/pcr/m/n/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op-ti
on
[1945] [1946] [1947]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4623--4623
 []  \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry
run),[] 
[1948] [1949] [1950]
Underfull \hbox (badness 10000) in paragraph at lines 4807--4810
[]\T1/ptm/m/n/10 optional char-ac-ter strings for the `[]\T1/pcr/m/n/10 Copyrig
ht[]\T1/ptm/m/n/10 ' and
Underfull \hbox (badness 6859) in paragraph at lines 4823--4828
[]\T1/ptm/m/n/10 All ex-ist-ing files in di-rec-tory []\T1/pcr/m/n/10 po []\T1/
ptm/m/n/10 with names `\T1/pcr/m/n/10 R-\T1/ptm/m/sl/10 lang\T1/pcr/m/n/10 .po\
T1/ptm/m/n/10 ' are up-dated from
Underfull \hbox (badness 1184) in paragraph at lines 4831--4837
[]\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/pcr/m/n/10 po
/\T1/ptm/m/sl/10 pkgname\T1/pcr/m/n/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. T
he
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\T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in t
he pack-age are ex-am-ined to cre-ate a file
[1951] [1952] [1953] [1954]
Underfull \hbox (badness 10000) in paragraph at lines 5065--5067
[]\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 vignetteEngine[][][][]\T1/ptm/m/n/10 
, such as []\T1/pcr/m/n/10 "utils::Sweave" []\T1/ptm/m/n/10 or
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5094--5094
 []               \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F
ALSE,[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 5095--5095
 []               \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr
ess = "xz",[] 
[1955]
Underfull \hbox (badness 3240) in paragraph at lines 5108--5111
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T
1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/10 ',
Underfull \hbox (badness 1742) in paragraph at lines 5112--5122
[]\T1/pcr/m/n/10 "Package"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Version"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "Priority"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Depe
nds"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Imports"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1127) in paragraph at lines 5150--5156
[]\T1/pcr/m/n/10 write_PACKAGES []\T1/ptm/m/n/10 scans the named di-rec-tory fo
r R pack-ages, ex-tracts in-for-ma-tion from
Underfull \hbox (badness 1635) in paragraph at lines 5150--5156
\T1/ptm/m/n/10 each pack-age's `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file
, and writes this in-for-ma-tion into the `\T1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/1
0 ',
[1956]
Underfull \hbox (badness 1571) in paragraph at lines 5178--5182
[]\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down-
load speed and time spent by
Underfull \hbox (badness 2772) in paragraph at lines 5204--5209
\T1/ptm/m/n/10 and `\T1/pcr/m/n/10 PACKAGES.gz\T1/ptm/m/n/10 ' files. See [][][
]\T1/pcr/m/n/10 update_PACKAGES[][][] []\T1/ptm/m/n/10 for ef-fi-ciently up-dat
-ing ex-ist-ing
[1957] [1958]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5342--5342
 []  \T1/pcr/m/n/9 "    stop(errorCondition(gettext(\TS1/pcr/m/n/9 '\T1/pcr/m/n
/9 needs Deep Thought\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), class=\TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 myError\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ))",[] 
[1959]) (./utils-pkg.tex [1960]
Chapter 14.
Underfull \hbox (badness 1072) in paragraph at lines 47--52
[]\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[]
\T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ',
[1961] [1962] [1963] [1964]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 260--260
 []\T1/pcr/m/n/9 find("cor", numeric = TRUE)                     # numbers with
 these names[] 
[1965] [1966]
Underfull \hbox (badness 10000) in paragraph at lines 378--383
\T1/ptm/m/n/10 are []\T1/pcr/m/n/10 c("vertical", "horizontal", "cascade", "min
imize",
Underfull \hbox (badness 10000) in paragraph at lines 384--386
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 of win-dow 
han-dles, by de-fault pro-duced by
[1967]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 450--450
 []\T1/pcr/m/n/9 # This default is useful only in SDI mode:  it will tile any F
irefox window[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 452--452
 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("",
 "Firefox"))[] 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 469--469
 []         \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No
", "Cancel"))),[] 
[1968] [1969] [1970]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 691--691
 []\T1/pcr/m/n/10 aspell_package_R_files(dir, ignore = character(), control = l
ist(),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 692--692
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 693--693
 []\T1/pcr/m/n/10 aspell_package_C_files(dir, ignore = character(), control = l
ist(),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 694--694
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
[1971]
Underfull \hbox (badness 10000) in paragraph at lines 728--734
[]\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 aspell_package_Rd_files[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 aspell_package_vignettes[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 4416) in paragraph at lines 728--734
[]\T1/pcr/m/n/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 a
spell_package_C_files []\T1/ptm/m/n/10 per-form spell check-
[1972] [1973]
Underfull \hbox (badness 1552) in paragraph at lines 927--933
[]\T1/ptm/m/n/10 A char-ac-ter ma-trix with one row per pack-age, row names the
 pack-age names and col-
[1974]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 954--954
 []\T1/pcr/m/n/9 db <- available.packages(repos = findCRANmirror("web"), filter
s = "duplicates")[] 
[1975]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 1056--1056
 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer =
 NULL, 
[1976]
Underfull \hbox (badness 7649) in paragraph at lines 1130--1136
[][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if Bib-TeX co
de should be given ad-di-tion-ally;
Underfull \hbox (badness 5533) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 cur-rently ap-plies only to []\T1/pcr/m/n/10 style = "citation"[
]\T1/ptm/m/n/10 . The de-fault for
Underfull \hbox (badness 4739) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 the []\T1/pcr/m/n/10 print() []\T1/ptm/m/n/10 method de-pends on
 the num-ber of (bib) en-tries and
Underfull \hbox (badness 1215) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 For ex-am-ple, to see no Bib-TeX at all, you can change the de-f
ault by
[1977]
Underfull \hbox (badness 10000) in paragraph at lines 1139--1141
[]\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing
[1978]
Underfull \hbox (badness 10000) in paragraph at lines 1257--1260
[]\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Digital _ Object _
[1979]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1340--1340
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1980] [1981] [1982] [1983] [1984] [1985]
Underfull \hbox (badness 1859) in paragraph at lines 1749--1758
[]\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b
e quite large the com-
Underfull \hbox (badness 2042) in paragraph at lines 1749--1758
\T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1
/ptm/m/n/10 never re-turns. Do not re-port that
[1986] [1987]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1854--1854
 []                                     \T1/pcr/m/n/9 data = infert, family = b
inomial())))[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 1889--1889
 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b
efore$timestamp,[] 
[1988] [1989]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 2035--2035
 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp"
), md5sum=TRUE)[] 
[1990]
Underfull \hbox (badness 2277) in paragraph at lines 2104--2109
[]\T1/pcr/m/n/10 charClass []\T1/ptm/m/n/10 was added in \T1/phv/m/n/10 R \T1/p
tm/m/n/10 4.1.0. A less di-rect way to ex-am-ine char-ac-ter classes
[1991]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 2136--2136
 []\T1/pcr/m/n/9 cl <- c("alnum", "alpha", "blank", "digit", "graph", "punct", 
"upper", "xdigit")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2138--2138
 []\T1/pcr/m/n/9 X <- as.data.frame(X); row.names(X) <- sQuote(intToUtf8(x, mul
tiple = TRUE))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 2146--2146
 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in
 Unicode 13.)[] 
[1992] [1993]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2294--2294
 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1994]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2346--2346
 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1995]
Underfull \hbox (badness 1117) in paragraph at lines 2461--2468
[]\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/pcr/m/n/10 citation() []\T1/
ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print
Underfull \hbox (badness 1400) in paragraph at lines 2461--2468
\T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I
f a pack-age has more
[1996] [1997]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2544--2544
 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after =
 NULL,[] 
[1998]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2664--2664
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1999]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 2704--2704
 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N
ULL, ...) 
Underfull \hbox (badness 1082) in paragraph at lines 2733--2737
[][][]\T1/pcr/m/n/10 citation[][][] []\T1/ptm/m/n/10 for more in-for-ma-tion ab
out cit-ing R and R pack-ages and `\T1/pcr/m/n/10 CITATION\T1/ptm/m/n/10 ' file
s;
[2000]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cli
pboard}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.2738 ... the Clipboard in MS Windows}{clipboard}
                                                  
Underfull \hbox (badness 1163) in paragraph at lines 2769--2771
[]\T1/ptm/m/n/10 The Win-dows clip-board of-fers data in a num-ber of for-mats:
 see e.g. [][]$\T1/pcr/m/n/10 https : / / docs .
Overfull \vbox (1.12102pt too high) has occurred while \output is active
[2001] [2002]
Underfull \hbox (badness 10000) in paragraph at lines 2862--2864
[]\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/
phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see
[2003] [2004] [2005]
Underfull \hbox (badness 10000) in paragraph at lines 3083--3085
[]\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see
[2006] [2007] [2008] [2009]
Underfull \hbox (badness 1762) in paragraph at lines 3376--3379
[]\T1/ptm/m/n/10 To just look in the `\T1/pcr/m/n/10 data\T1/ptm/m/n/10 ' di-re
c-tory of the cur-rent work-ing di-rec-tory, set []\T1/pcr/m/n/10 package =
[2010]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3464--3464
 []\T1/pcr/m/n/9 try(data(package = "rpart"), silent = TRUE) # list the data se
ts in the rpart package[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3465--3465
 []\T1/pcr/m/n/9 data(USArrests, "VADeaths")    # load the data sets \TS1/pcr/m
/n/9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 
'\T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] 
[2011]
Underfull \hbox (badness 2452) in paragraph at lines 3539--3542
[]\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class []\
T1/pcr/m/n/10 R_dataentry[]\T1/ptm/m/n/10 . Re-sources
[2012] [2013] [2014] [2015] [2016] [2017] [2018]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 3967--3967
 []  \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf
orm$r_arch, "stats.dll"))[] 
[2019]
Underfull \hbox (badness 4779) in paragraph at lines 4048--4053
[]\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10
 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use
[2020]
Underfull \hbox (badness 1072) in paragraph at lines 4111--4115
[]\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by
 the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the
Underfull \hbox (badness 7238) in paragraph at lines 4167--4172
[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1
0 via \T1/ptm/m/n/10 the en-vi-ron-
Underfull \hbox (badness 1337) in paragraph at lines 4167--4172
\T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or 
[]\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / 
/ curl . se / libcurl / c /
Underfull \hbox (badness 1184) in paragraph at lines 4182--4198
\T1/ptm/m/n/10 string con-tain-ing `[]\T1/pcr/m/n/10 "Schannel"[]\T1/ptm/m/n/10
 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-
[2021] [2022]
Underfull \hbox (badness 4660) in paragraph at lines 4308--4311
\T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/
m/n/10 which makes an in-ter-nal call to
Underfull \hbox (badness 10000) in paragraph at lines 4332--4334
[]\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 do
wnload.file[][][] []\T1/ptm/m/n/10 and
[2023] [2024] [2025]
Underfull \hbox (badness 1565) in paragraph at lines 4519--4523
[]\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c
har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of
[2026]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4602--4602
 []        \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F
ALSE,[] 
[2027]
Underfull \hbox (badness 1910) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 is saved, then ini-tial-ized to a spec-i-fied state, the ex-am-p
le is run and
Underfull \hbox (badness 1655) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 the (saved) state is re-stored. []\T1/pcr/m/n/10 setRNG = TRUE [
]\T1/ptm/m/n/10 sets the same state as
Underfull \hbox (badness 2846) in paragraph at lines 4637--4644
[]\T1/pcr/m/n/10 R CMD [][]check[][][] []\T1/ptm/m/n/10 does for run-ning a pac
k-age's ex-am-ples. This is cur-
Underfull \hbox (badness 3460) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 rently equiv-a-lent to []\T1/pcr/m/n/10 setRNG = {RNGkind("defau
lt", "default",
Underfull \hbox (badness 1931) in paragraph at lines 4644--4651
[]\T1/ptm/m/n/10 logical (or []\T1/pcr/m/n/10 "default"[]\T1/ptm/m/n/10 ) in-di
-cat-ing if [][][]\T1/pcr/m/n/10 devAskNewPage[][][](ask = TRUE)
[2028] [2029] [2030] [2031]
Underfull \hbox (badness 5939) in paragraph at lines 4897--4899
[]\T1/ptm/m/n/10 An en-try in []\T1/pcr/m/n/10 getOption("repos") []\T1/ptm/m/n
/10 named `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' which is not the de-fault
[2032] [2033]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5040--5040
 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o
ne is in the[] 
[2034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for
mat}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5111 ...mat Unordered and Ordered Lists}{format}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.format.1}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.5111 ...mat Unordered and Ordered Lists}{format}
                                                   [2035] [2036] [2037]
[2038] [2039] [2040] [2041] [2042]
Underfull \hbox (badness 1622) in paragraph at lines 5634--5638
[]\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing
 to ex-ter-nal GUIs or to the
[2043] [2044] [2045] [2046] [2047] [2048]
Underfull \hbox (badness 1448) in paragraph at lines 6019--6024
[]\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject
s, cor-re-spond-ing to call-ing
[2049] [2050]
Overfull \hbox (96.78088pt too wide) in paragraph at lines 6166--6166
 []\T1/pcr/m/n/10 ## NB: The methods for \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 data.f
rame\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 and \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 array\
TS1/pcr/m/n/10 '  \T1/pcr/m/n/10 are identical to the \TS1/pcr/m/n/10 '\T1/pcr/
m/n/10 matrix\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 one[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 6178--6178
 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported 
as tail.matrix()[] 
[2051] [2052]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6312--6312
 []    \T1/pcr/m/n/9 ## BUT if I use "useAttrib(.)", this is *not* ok, when n i
s of length 2:[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 6313--6313
 []    \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops 
"other" attributes ..[] 
[2053] [2054] [2055]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6523--6523
 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h
elp(dgamma):[] 
[2056]
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[]\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 https : / / www . r-[]
project . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also
[2057]
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[]\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words
'. `Key-
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\T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are 
listed in file
[2058] [2059]
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[]\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-
Underfull \hbox (badness 10000) in paragraph at lines 6833--6842
\T1/ptm/m/n/10 dex, `\T1/ptm/m/sl/10 R_DOC_DIR\T1/pcr/m/n/10 /html/packages.htm
l\T1/ptm/m/n/10 ', which can be re-made by
[2060]
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion 
to search. See
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[]\T1/pcr/m/n/10 hsearch_db() []\T1/ptm/m/n/10 builds and caches the help searc
h database for sub-se-quent use by
[2061] [2062]
Underfull \hbox (badness 3118) in paragraph at lines 7034--7036
[]\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion `
Lock-ing' in the help for
[2063] [2064]
Underfull \hbox (badness 5091) in paragraph at lines 7209--7211
[]\T1/ptm/m/n/10 download method, see [][][]\T1/pcr/m/n/10 download.file[][][][
]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL
[2065]
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[]\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 means to use []\T1/pcr/m/n/10 c("Depends
", "Imports", "LinkingTo",
Underfull \hbox (badness 10000) in paragraph at lines 7239--7246
\T1/pcr/m/n/10 "Suggests") []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pkgs []\T1/ptm
/m/n/10 and []\T1/pcr/m/n/10 c("Depends", "Imports",
Underfull \hbox (badness 1270) in paragraph at lines 7239--7246
\T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in
-stalls all the pack-ages
Underfull \hbox (badness 1270) in paragraph at lines 7254--7264
\T1/ptm/m/n/10 for the `[]\T1/pcr/m/n/10 --configure-args[]\T1/ptm/m/n/10 ' fla
g in the call to []\T1/pcr/m/n/10 R CMD INSTALL[]\T1/ptm/m/n/10 . If
[2066]
Underfull \hbox (badness 4441) in paragraph at lines 7297--7300
[]\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to
 be passed to
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[]\T1/pcr/m/n/10 R CMD INSTALL []\T1/ptm/m/n/10 for a source pack-age in-stall.
 E.g., []\T1/pcr/m/n/10 c("--html",
Underfull \hbox (badness 1424) in paragraph at lines 7305--7308
[]\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p
tm/m/it/10 not \T1/ptm/m/n/10 passed to
Underfull \hbox (badness 10000) in paragraph at lines 7318--7322
[]\T1/ptm/m/n/10 further ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 downl
oad.file[][][][]\T1/ptm/m/n/10 ,
[2067]
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[]\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/pcr/m/n
/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail-
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\T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there
 are source pack-ages
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\T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com
-piled is con-trolled by
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[]\T1/ptm/m/n/10 Using pack-ages with []\T1/pcr/m/n/10 type = "source" []\T1/pt
m/m/n/10 al-ways works pro-vided the pack-age con-tains no
[2068]
Underfull \hbox (badness 1314) in paragraph at lines 7464--7471
[]\T1/pcr/m/n/10 install.packages []\T1/ptm/m/n/10 needs to be able to com-pute
 all the de-pen-den-cies of []\T1/pcr/m/n/10 pkgs []\T1/ptm/m/n/10 from
[2069]
Underfull \hbox (badness 10000) in paragraph at lines 7547--7552
[][][]\T1/pcr/m/n/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pac
kages[][][][]\T1/ptm/m/n/10 ,
Overfull \hbox (25.98041pt too wide) in paragraph at lines 7570--7570
 []  \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc
lude/udunits2"))[] 
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each
 pack-age's
Underfull \hbox (badness 1983) in paragraph at lines 7620--7623
[]\T1/pcr/m/n/10 installed.packages []\T1/ptm/m/n/10 scans the `\T1/pcr/m/n/10 
DESCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along
[2070]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7667--7667
 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields
 = "License")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7672--7672
 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot
hers separate![] 
[2071] [2072]
Underfull \hbox (badness 4132) in paragraph at lines 7798--7800
[]\T1/ptm/m/n/10 The ac-tual link-ing com-mand is con-structed by the ver-sion 
of []\T1/pcr/m/n/10 libtool []\T1/ptm/m/n/10 in-stalled at
[2073] [2074] [2075]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7965--7965
 []\T1/pcr/m/n/9 ls.str(mode = "list")   #- what are the structured objects I h
ave defined?[] 
[2076] [2077]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 8108--8108
 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F
ALSE) 
[2078]
Underfull \hbox (badness 10000) in paragraph at lines 8148--8150
[]\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/
phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see
[2079]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8240--8240
 []   \T1/pcr/m/n/10 methods(generic.function, class, all.names = FALSE, dropPa
th = FALSE)[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8242--8242
 []                                    \T1/pcr/m/n/10 all.names = FALSE, dropPa
th = FALSE)[] 
Underfull \hbox (badness 10000) in paragraph at lines 8255--8257
[]\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if
Underfull \hbox (badness 10000) in paragraph at lines 8270--8272
[]\T1/ptm/m/n/10 typically the re-sult of []\T1/pcr/m/n/10 methods(..)[]\T1/ptm
/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class
[2080] [2081] [2082] [2083]
Underfull \hbox (badness 1859) in paragraph at lines 8502--8505
[]\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br
owser (by
[2084] [2085]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 8630--8630
 []\T1/pcr/m/n/9 db4 <- news(Version == "4.0.0" & grepl("^BUG", Category) & gre
pl("PR#", Text),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 8636--8636
 []\T1/pcr/m/n/9 ## News from a date range (\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Matri
x\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is there in a regular R installation):[] 
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 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st
andardize a bit more[] 
[2086]
Underfull \hbox (badness 1917) in paragraph at lines 8731--8733
[]\T1/pcr/m/n/10 "B"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "KiB"[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 "MiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "GiB"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "TiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "PiB"[]\T1/ptm/m/
n/10 ,
Underfull \hbox (badness 1331) in paragraph at lines 8739--8743
[]\T1/ptm/m/n/10 For all stan-dards, []\T1/pcr/m/n/10 units = "auto" []\T1/ptm/
m/n/10 is also al-lowed. If []\T1/pcr/m/n/10 standard =
[2087] [2088] [2089]
Underfull \hbox (badness 7099) in paragraph at lines 8903--8908
[]\T1/ptm/m/n/10 optionally a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/
n/10 string with an en-cod-ing for an op-tional
[2090]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 9005--9005
 []            \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica
tion", "Built"),[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 9006--9006
 []            \T1/pcr/m/n/10 tryFormats = c("%Y-%m-%d", "%Y/%m/%d", "%D", "%m/
%d/%y"),[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 9007--9007
 []            \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f
ields=date.fields))[] 
[2091]
Underfull \hbox (badness 10000) in paragraph at lines 9035--9037
[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 asDateBuilt()[]\T1/ptm/m/n/10 , a [][][]\
T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string as from
Underfull \hbox (badness 10000) in paragraph at lines 9049--9051
[]\T1/pcr/m/n/10 packageVersion() []\T1/ptm/m/n/10 is a con-ve-nience short-cut
, al-low-ing things like []\T1/pcr/m/n/10 if
Underfull \hbox (badness 1259) in paragraph at lines 9057--9062
[]\T1/ptm/m/n/10 If a `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the 
given pack-age is found and can suc-cess-fully be read,
[2092]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 9101--9101
 []          \T1/pcr/m/n/9 identical(pu, packageDate("stats"))) # as "utils" an
d "stats" are[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 9102--9102
 []                                   \T1/pcr/m/n/9 # both \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 base R\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and "Built" at same time[] 
[2093] [2094]
Underfull \hbox (badness 10000) in paragraph at lines 9228--9233
[]\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit
h lev-els []\T1/pcr/m/n/10 c("ok", "upgrade",
Underfull \hbox (badness 10000) in paragraph at lines 9235--9238
[]\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit
h lev-els []\T1/pcr/m/n/10 c("installed", "not
[2095] [2096]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 9352--9352
 []       \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme
nt"),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 9353--9353
 []       \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", 
">"),[] 
[2097] [2098]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9538--9538
 []         \T1/pcr/m/n/9 "S original, <http://statwww.epfl.ch/davison/BMA/libr
ary.html>"),[] 
[2099] [2100] [2101]
Underfull \hbox (badness 1789) in paragraph at lines 9706--9708
[]\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for
 more dis-cus-sion of the
[2102] [2103] [2104]
Underfull \hbox (badness 2600) in paragraph at lines 9930--9933
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic;
 de-faults to
[2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 10553--10553
 []         \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "
no.loss"),[] 
[2113] [2114] [2115]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 10714--10714
 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr
anspose = TRUE)[] 
[2116] [2117]
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 []\T1/pcr/m/n/9 read.fwf(ff, widths = list(c(1,0, 2,3), c(2,2,2))) #> 1 NA 23 
456 98 76 54[] 
[2118] [2119]
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 []           \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss",
 "no.loss"),[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 10982--10982
 []           \T1/pcr/m/n/10 row.names, col.names, as.is = !stringsAsFactors, t
ryLogical = TRUE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 10984--10984
 []           \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines.
skip,[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 10989--10989
 []           \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski
pNul = FALSE)[] 
[2120]
Underfull \hbox (badness 2027) in paragraph at lines 11061--11064
[]\T1/ptm/m/n/10 Using []\T1/pcr/m/n/10 row.names = NULL []\T1/ptm/m/n/10 force
s row num-ber-ing. Miss-ing or []\T1/pcr/m/n/10 NULL
Underfull \hbox (badness 2435) in paragraph at lines 11084--11088
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 de-ter-m
in-ing if columns con-sist-ing en-tirely of []\T1/pcr/m/n/10 "F"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1824) in paragraph at lines 11084--11088
[]\T1/pcr/m/n/10 "FALSE"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "TRUE" []\T1/pt
m/m/n/10 should be con-verted to [][][]\T1/pcr/m/n/10 logical[][][][]\T1/ptm/m/
n/10 ; passed to
[2121] [2122] [2123] [2124]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 11346--11346
 []\T1/pcr/m/n/10 readRegistry(key, hive = c("HLM", "HCR", "HCU", "HU", "HCC", 
"HPD"), 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 11347--11347
 []             \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64-
bit"))[] 
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
[]\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/
pcr/m/n/10 HKEY_CLASSES_ROOT[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
[]\T1/pcr/m/n/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_USER
S[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_CURRENT_CONFIG
[2125] [2126] [2127]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 11586--11586
 []        \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c
(1, 0))) 
[2128] [2129] [2130] [2131] [2132]
Underfull \hbox (badness 2469) in paragraph at lines 11852--11856
[]\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2024). Ro-man nu-mer-als. Wikipedia
, The Free En-cy-clo-pe-dia.
Underfull \hbox (badness 10000) in paragraph at lines 11852--11856
[][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / w / index . php ? title 
= Roman _ numerals & oldid =
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11870--11870
 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:6))) # + NA with a warni
ng for "IIIIII"[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11875--11875
 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in  
{1,2,..,3999} :[] 
[2133] [2134]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 12028--12028
 []\T1/pcr/m/n/10 4. |     \-base:::tryCatchOne(expr, names, parentenv, handler
s[[1L]])[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 12029--12029
 []\T1/pcr/m/n/10 5. |       \-base:::doTryCatch(return(expr), name, parentenv,
 handler)[] 
[2135]
Underfull \hbox (badness 10000) in paragraph at lines 12131--12133
[]\T1/ptm/m/n/10 The chap-ter on ``Tidy-ing and pro-fil-ing R code'' in `Writ-i
ng R Ex-ten-sions':
[2136]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12164--12164
 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold
 = 0) 
[2137] [2138]
Underfull \hbox (badness 1917) in paragraph at lines 12297--12300
[]\T1/ptm/m/n/10 If `[]\T1/pcr/m/n/10 --default-packages[]\T1/ptm/m/n/10 ' is n
ot used, then []\T1/pcr/m/n/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron-me
nt vari-
Underfull \hbox (badness 4328) in paragraph at lines 12297--12300
\T1/ptm/m/n/10 able []\T1/pcr/m/n/10 R_SCRIPT_DEFAULT_PACKAGES[]\T1/ptm/m/n/10 
. If this is set, then it takes prece-dence over
Overfull \hbox (106.98032pt too wide) in paragraph at lines 12320--12320
 []\T1/pcr/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr
aphics,stats -e \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 sessionInfo()\TS1/pcr/m/n/9 '[] 
[2139] [2140]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 12412--12412
 []            \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news",
 "Rfunctions",[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 12413--12413
 []                         \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig
nettes"),[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 12415--12415
 []            \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s
ubject",[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 12416--12416
 []                       \T1/pcr/m/n/10 "subject:descending", "size", "size:de
scending"),[] 
Underfull \hbox (badness 6725) in paragraph at lines 12439--12447
\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 score[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 date:
late []\T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first,
Underfull \hbox (badness 2662) in paragraph at lines 12439--12447
\T1/ptm/m/n/10 der, []\T1/pcr/m/n/10 subject:descending []\T1/ptm/m/n/10 for re
-verse al-pha-bet-i-cal or-der, []\T1/pcr/m/n/10 size []\T1/ptm/m/n/10 or
[2141]
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 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes","
Rfunctions"))[] 
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[]\T1/ptm/m/n/10 Character string spec-i-fy-ing whether emacs style ([]\T1/pcr/
m/n/10 "etags"[]\T1/ptm/m/n/10 ) or vi style
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[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p
tm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / www . gnu . org / software /
[2143]
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ALSE, ...)[] 
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[]\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 stylepath []\T1/ptm/m/n/10 i
s now taken from the en-vi-ron-ment vari-able
[2146]
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[]\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y
ou can add a
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[]\T1/ptm/m/n/10 The use of fancy quotes (see [][][]\T1/pcr/m/n/10 sQuote[][][]
[]\T1/ptm/m/n/10 ) can cause prob-lems when set-ting \T1/phv/m/n/10 R \T1/ptm/m
/n/10 out-put in
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rent")[] 
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[]\T1/ptm/m/n/10 The file `\T1/pcr/m/n/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ures
 the R GUI ([]\T1/pcr/m/n/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows
 and
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[]\T1/ptm/m/n/10 At the time of writ-ing `\T1/pcr/m/n/10 Rdevga\T1/ptm/m/n/10 '
 con-fig-ured the map-ping of font num-bers to fonts, and
[2150] [2151] [2152] [2153] [2154]
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[]\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in
g
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g
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end of report[] 
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[]\T1/ptm/m/n/10 Repository `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' is treated
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fix)) 
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[]\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t
o the Win-dows API call
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[]\T1/pcr/m/n/10 getSrcFilename []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 getSrcDir
ectory []\T1/ptm/m/n/10 re-turn char-ac-ter vec-tors hold-ing the file-
[2161] [2162] [2163]
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 TRUE, ...))[] 
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[]\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t
ive
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[][][]\T1/pcr/m/n/10 options[][][]("width")[]\T1/ptm/m/n/10 ; note that this ha
s only a weak ef-fect, un-less
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[]\T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 options[][][][]\T1/ptm/m/n/10 ) whic
h de-faults to []\T1/pcr/m/n/10 "no" []\T1/ptm/m/n/10 for back com-pat-i-bil-it
y rea-sons;
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[]\T1/ptm/m/n/10 numeric or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 as by de-fau
lt, de-ter-min-ing the []\T1/pcr/m/n/10 nlines []\T1/ptm/m/n/10 ar-gu-ment to
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 []\T1/pcr/m/n/9 str(.Machine, digits.d = 20) # extra digits for identification
 of binary numbers[] 
[2165]
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 []\T1/pcr/m/n/9 ## Truncation behavior (<-> correct width measurement) for "lo
ng" non-ASCII:[] 
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e  1  (in UTF-8!):[] 
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[]\T1/ptm/m/n/10 Options other than []\T1/pcr/m/n/10 memory = "none" []\T1/ptm/
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[]\T1/ptm/m/n/10 The chap-ter on `Tidy-ing and pro-fil-ing R code' in `Writ-ing
 R Ex-ten-sions':
[2169]
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[]\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's setup func-tion. Se
e
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[][][]\T1/pcr/m/n/10 RweaveLatexSetup[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/
m/n/10 RtangleSetup[][][][]\T1/ptm/m/n/10 , re-spec-tively, for the ar-gu-
[2170]
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[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fau
lt) then the avail-able syn-tax ob-jects are con-sulted in
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\T1/ptm/m/n/10 turn, and se-lected if their []\T1/pcr/m/n/10 extension []\T1/pt
m/m/n/10 com-po-nent matches (as a reg-exp) the file
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\T1/ptm/m/n/10 name. Ob-jects []\T1/pcr/m/n/10 SweaveSyntaxNoweb []\T1/ptm/m/n/
10 (with []\T1/pcr/m/n/10 extension = "[.][rsRS]nw$"[]\T1/ptm/m/n/10 ) and
[2171] [2172]
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\T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/
n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on
 some plat-forms),
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\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --
exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n
/10 ' (and sim-i-lar) and on Win-dows
[2173]
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[]\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p
cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able
[2174]
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[]\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t
o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment 
vari-able
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[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ f
ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / pubs .
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\T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht
ml # tag _ 20 _ 92 _
[2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183]
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 []             \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc,
 ...),[] 
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 []             \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc,
 ...),[] 
[2184]
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[]\T1/ptm/m/n/10 Download method, see [][][]\T1/pcr/m/n/10 download.file[][][][
]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL
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\T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/
m/n/10 which makes an in-ter-nal call to
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[]\T1/ptm/m/n/10 by de-fault all in-stalled pack-ages, [][][]\T1/pcr/m/n/10 ins
talled.packages[][][](lib.loc =
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[]\T1/ptm/m/n/10 Arguments such as []\T1/pcr/m/n/10 destdir []\T1/ptm/m/n/10 an
d []\T1/pcr/m/n/10 dependencies []\T1/ptm/m/n/10 to be
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\T1/ptm/m/n/10 passed to [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/
m/n/10 and []\T1/pcr/m/n/10 ignore_repo_cache[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 max_repo_cache_age []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 noCac
he []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 available.packages[][][]
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[]\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and
 in-stall. See
[2185]
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[]\T1/pcr/m/n/10 available = NULL []\T1/ptm/m/n/10 make a call to []\T1/pcr/m/n
/10 available.packages(contriburl =
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\T1/pcr/m/n/10 contriburl, method = method) []\T1/ptm/m/n/10 and hence by de-fa
ult fil-ters on \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion, OS type
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[]\T1/ptm/m/n/10 Take care when us-ing []\T1/pcr/m/n/10 dependencies []\T1/ptm/
m/n/10 (passed to [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 )
 with
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[][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pa
ckages[][][][]\T1/ptm/m/n/10 ,
[2186]
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 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/
csb/ch3a.txt") 
[2187] [2188] [2189]
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[][][]\T1/pcr/m/n/10 browseVignettes[][][] []\T1/ptm/m/n/10 for an HTML-based v
i-gnette browser; [][][]\T1/pcr/m/n/10 RShowDoc[][][]("\T1/ptm/m/sl/10 basename
\T1/pcr/m/n/10 ",
[2190]
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 []\T1/pcr/m/n/9 ## Note that \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 package = *\TS1/pcr
/m/n/9 ' \T1/pcr/m/n/9 is much faster in the case of many installed packages:[]
 
[2191]
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 []                      \T1/pcr/m/n/9 lm(weight ~ (Time + I(Time^2)) * Diet, d
ata = DAT)))[] 
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 []                 \T1/pcr/m/n/9 nls(weight ~ SSlogis(Time, Asym, xmid, scal),
 data = DD)))[] 
[2192] [2193]
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[]\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i
s se-lected, or
[2194]
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 winMenuDel []\T1/ptm/m/n/10 func-tion wil
l delete a menu and all of its items and sub-menus.
[2195] [2196]
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 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep =
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[]\T1/ptm/m/n/10 arguments to []\T1/pcr/m/n/10 write.table[]\T1/ptm/m/n/10 : []
\T1/pcr/m/n/10 append[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 col.names[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 sep[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dec []\T1/ptm/m/n
/10 and
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[]\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec-
tion e.g. []\T1/pcr/m/n/10 file =
[2198] [2199] [2200]) [2201] [2202] (./KernSmooth-pkg.tex
Chapter 15.
[2203]
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 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat
e = TRUE) 
[2204] [2205] [2206] [2207] [2208]
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 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun
 = 0.05, 
[2209] [2210] [2211] [2212]) (./MASS-pkg.tex
Chapter 16.
[2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] [2222] [2223]
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 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b
eav2$hours/24))[] 
[2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233]pdfTeX war
ning (ext4): destination with the same identifier (name{Rfn.confint.glm}) has b
een already used, duplicate ignored
<to be read again> 
                   \relax 
l.1479 ...{confint.glm}{confint-MASS}{confint.glm}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.confint.nls}) has been already used, d
uplicate ignored
<to be read again> 
                   \relax 
l.1480 ...{confint.nls}{confint-MASS}{confint.nls}
                                                   [2234] [2235] [2236]
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"F"),[] 
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"F"),[] 
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[]\T1/ptm/m/n/10 further ar-gu-ments for []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10
 and graph-i-cal pa-ram-e-ters. Note that
[2250] [2251] [2252]
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[]\T1/pcr/m/n/10 "gamma"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "geometric"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "log-normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lo
gnormal"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "negative binomi
al"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n
/10 "Poisson"[]\T1/ptm/m/n/10 ,
[2253] [2254]
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[]\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i-
na-tor ex-ceeds
[2255] [2256] [2257]
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 []            \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL
SE, ...)[] 
[2258] [2259]
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 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist =
 "exponential")[] 
[2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270]
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[]\T1/ptm/m/n/10 The va-ri-ety of bar-ley ([]\T1/pcr/m/n/10 "manchuria"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "svansota"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "velv
et"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trebi" []\T1/ptm/m/n/10 and
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 []        \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n",
 ...)[] 
[2278] [2279] [2280]
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 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model 
= FALSE, 
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[2292] [2293] [2294]
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 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP
ACK = FALSE) 
[2295]
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 []\T1/pcr/m/n/10 negative.binomial(theta = stop("\TS1/pcr/m/n/10 '\T1/pcr/m/n/
10 theta\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 must be specified"), link = "log") 
[2296] [2297]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.npk}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6086 ...sical N, P, K Factorial Experiment}{npk}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.npk.1}) has been already used, duplica
te ignored
<to be read again> 
                   \relax 
l.6086 ...sical N, P, K Factorial Experiment}{npk}
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[2301] [2302] [2303]
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ose = TRUE)))[] 
[2304]
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 []     \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr
ellis"))[] 
[2305] [2306] [2307] [2308] [2309]
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 []     \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c
auchit"))[] 
[2310]
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[]\T1/ptm/m/n/10 The log-log and com-ple-men-tary log-log links are the in-crea
s-ing func-tions $\OML/cmm/m/it/10 F[]\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 p\OT1/c
mr/m/n/10 ) =
[2311]
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 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da
ta = housing)[] 
[2312] [2313]
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[]\T1/ptm/m/n/10 the di-men-sion of the space to be used. If this is less than 
[]\T1/pcr/m/n/10 min(p,
[2314] [2315]
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 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam
p = "exact")[] 
[2316]
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 []        \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC
V"), ...)[] 
[2317]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.pro
file.glm}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7514 ... for Profiling glm Objects}{profile.glm}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.profile.glm.1}) has been already used,
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                   \relax 
l.7514 ... for Profiling glm Objects}{profile.glm}
                                                   [2318] [2319] [2320]
[2321]
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[]\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i-
na-tor ex-ceeds
[2322] [2323]
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 []    \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control =
 NULL)[] 
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[]\T1/ptm/m/n/10 A func-tion to spec-ify the ac-tion to be taken if []\T1/pcr/m
/n/10 NA[]\T1/ptm/m/n/10 s are found. The
[2324] [2325] [2326] [2327] [2328] [2329] [2330] [2331] [2332] [2333] [2334]
[2335] [2336] [2337] [2338] [2339] [2340] [2341] [2342] [2343]
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 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS
E, ...)[] 
[2344]
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[]\T1/ptm/m/n/10 ``Fold your arms! Which is on top'' (Fac-tor, with lev-els []\
T1/pcr/m/n/10 "R on L"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "L on R"[]\T1/ptm/m/n
/10 ,
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[]\T1/ptm/m/n/10 how much the stu-dent smokes. (Fac-tor, lev-els []\T1/pcr/m/n/
10 "Heavy"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Regul" []\T1/ptm/m/n/10 (reg-u-l
arly),
[2345]
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 []\T1/pcr/m/n/10 theta.md(y, mu, dfr, weights, limit = 20, eps = .Machine$doub
le.eps^0.25) 
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 []\T1/pcr/m/n/10 theta.ml(y, mu, n, weights, limit = 10, eps = .Machine$double
.eps^0.25,[] 
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 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub
le.eps^0.25)[] 
[2346] [2347] [2348] [2349] [2350]
Underfull \hbox (badness 2951) in paragraph at lines 9910--9912
[]\T1/ptm/m/n/10 The orig-i-nal data are avail-able at [][]$\T1/pcr/m/n/10 http
s : / / lib . stat . cmu . edu / datasets / 1993 .
[2351] [2352] [2353] [2354] [2355] [2356] [2357] [2358]) (./Matrix-pkg.tex
Chapter 17.
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[]\T1/ptm/m/n/10 Note that the cur-rent im-ple-men-ta-tion de-tails are sub-jec
t to change, and if you
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\T1/ptm/m/n/10 con-sider work-ing with these classes, please con-tact the pack-
age main-tain-ers
[2359]
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[]\T1/ptm/m/n/10 This is cur-rently ex-per-i-men-tal and not yet used for our o
wn code. Please con-tact us
[2360]
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[]\T1/ptm/m/n/10 in gen-eral an ar-bi-trary num-ber of \T1/phv/m/n/10 R \T1/ptm
/m/n/10 ob-jects; here, when the first is
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\T1/ptm/m/n/10 an []\T1/pcr/m/n/10 "[][]abIndex[][][]" []\T1/ptm/m/n/10 vec-tor
, these ar-gu-ments will be con-cate-nated to a new
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.all.equal
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.182 ...{all.equal}{all.equal-methods}{all.equal}
                                                  
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[]\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing
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[]\T1/ptm/m/n/10 There are more meth-ods, no-tably also for []\T1/pcr/m/n/10 "[
][]sparseVector[][][]"[]\T1/ptm/m/n/10 's, see
[2361]
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[]\T1/ptm/m/n/10 optional ar-gu-ments passed to the de-fault method for generic
 func-tion
[2362] [2363]
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 []   \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym
metry property[] 
[2364]
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[]\T1/ptm/m/n/10 logical; if true the re-sult will be sym-met-ric (in-her-it-in
g from class
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[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/
m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc
r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse
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 []\T1/pcr/m/n/9 s1 <- bandSparse(13, k = -c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
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 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k =  c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
[2365]
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 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20, 1), rpois(20, 3))[
c(1:3, 2:3, 3:2)],[] 
[2366]
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Fast version of Matrix :: .bd
iag() -- for the case of *many*  (k x k) matrices:[] 
[2367]
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @param lmat list(<mat1>, <mat
2>, ....., <mat_N>)  where each mat_j is a  k x k \TS1/pcr/m/n/9 '\T1/pcr/m/n/9
 matrix\TS1/pcr/m/n/9 '[] 
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @return a sparse (N*k x N*k) 
matrix of class  \code{"\linkS4class{dgCMatrix}"}.[] 
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 []        \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 i :\TS1/pcr/m/n/9 ' \
T1/pcr/m/n/9 maybe there\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s a faster way (w/o matri
x indexing), but elegant?[] 
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 []        \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len(
N), each=k)]),[] 
[2368]
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 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero
s" to drop0()[] 
[2369]
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[]\T1/pcr/m/n/10 new("pBunchKaufman", ...)[]\T1/ptm/m/n/10 , but they are more 
typ-i-cally ob-tained as the value of
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[]\T1/pcr/m/n/10 signature(from = "BunchKaufman", to = "dtrMatrix")[]\T1/ptm/m/
n/10 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "pBunchKaufman", to = "dtpMatrix")[]\T1/ptm/m
/n/10 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "p?BunchKaufman", logarithm =
[2370]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
[2371]
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[]\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing
 from vir-tual class
[2372]
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 []\T1/pcr/m/n/9 stopifnot(all.equal(as(A, "matrix"), as(Reduce(\TS1/cmtt/m/n/9
 `\T1/pcr/m/n/9 %*%\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 , e.bk.A), "matrix")))[] 
[2373]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbi
nd2.Rdash.methods}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1185 ... on cbind2/rbind2}{cbind2.Rdash.methods}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.cbind2}) has been already used, duplic
ate ignored
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                   \relax 
l.1186 \aliasA{cbind2}{cbind2-methods}{cbind2}
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                   \relax 
l.1195 \aliasA{rbind2}{cbind2-methods}{rbind2}
                                              pdfTeX warning (ext4): destinatio
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                   \relax 
l.1204 ...s}{cbind2-methods}{rbind2.Rdash.methods}
                                                   [2374]
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[]\T1/ptm/m/n/10 Our class def-i-ni-tion help pages men-tion-ing []\T1/pcr/m/n/
10 cbind2() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 rbind2() []\T1/ptm/m/n/10 met
h-ods:
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[]\T1/ptm/m/n/10 The im-ple-men-ta-tion of class []\T1/pcr/m/n/10 CHMfactor []\
T1/ptm/m/n/10 is based on CHOLMOD's C-level
[2375] [2376]
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[]\T1/pcr/m/n/10 signature(from = "CHMfactor", logarithm = "logical")[]\T1/ptm/
m/n/10 : be-
[2377]
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[]\T1/pcr/m/n/10 signature(update = ., C = ., object = "CHMfactor")[]\T1/ptm/m/
n/10 : see
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
[2378]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
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 []    \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(e.ch.A, L1 %*%
 D %*% L1.))[] 
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 []    \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(E.ch.A, L  %*%
         L. ))[] 
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 []\T1/pcr/m/n/9 u2 <- update(ch.A, t(M), mult = sqrt(2)) # updating with cross
prod(M), not M[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol}) ha
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<to be read again> 
                   \relax 
l.1625 \aliasA{chol}{chol-methods}{chol}
                                         [2379]
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
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Rfn.chol2inv}) has been already used, duplicate ignored
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                   \relax 
l.1854 ...sA{chol2inv}{chol2inv-methods}{chol2inv}
                                                   [2382] [2383]
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[]\T1/ptm/m/n/10 a nu-meric vec-tor of length []\T1/pcr/m/n/10 n*n []\T1/ptm/m/
n/10 ([]\T1/pcr/m/n/10 Cholesky[]\T1/ptm/m/n/10 ) or []\T1/pcr/m/n/10 n*(n+1)/2
 []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 pCholesky[]\T1/ptm/m/n/10 ), where
Underfull \hbox (badness 1226) in paragraph at lines 2005--2008
[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 CholeskyFactorization[][][][]\T1/pt
m/m/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1
/ptm/m/n/10 , by class
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[]\T1/ptm/m/n/10 Objects can be gen-er-ated di-rectly by calls of the form []\T
1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or
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[]\T1/pcr/m/n/10 signature(from = "pCholesky", to = "dtpMatrix")[]\T1/ptm/m/n/1
0 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "p?Cholesky", logarithm = "logical")[]\T1/ptm
/m/n/10 :
[2384]
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
[2385]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
[2386]
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[]\T1/ptm/m/n/10 a [][]fi-nite[][][] num-ber. The ma-trix that is fac-tor-ized 
is []\T1/pcr/m/n/10 A + Imult *
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\T1/pcr/m/n/10 - diag(abs(A))) []\T1/ptm/m/n/10 en-sures that []\T1/pcr/m/n/10 
A + Imult * diag(nrow(A)) []\T1/ptm/m/n/10 is di-
[2387]
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[]\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing
 from vir-tual class
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
[2388] [2389]
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 []     \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm =  TRUE, super = FALSE, L
DL =  TRUE),[] 
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 []          \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm =  TRUE, super = FALSE, L
DL = FALSE),[] 
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 []          \T1/pcr/m/n/9 super0 = Cholesky(A4, perm =  TRUE, super =  TRUE   
          )),[] 
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 []     \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = FALSE, super = FALSE, L
DL =  TRUE),[] 
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 []          \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = FALSE, super = FALSE, L
DL = FALSE),[] 
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 []          \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = FALSE, super =  TRUE   
          )))[] 
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 []\T1/pcr/m/n/9 rapply2 <- function(object, f, ...) rapply(object, f, , , how 
= "list", ...)[] 
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 []          \T1/pcr/m/n/9 x = c(1, 6, 38, 10, 60, 103, -4, 6, -32, -247, -2, -
16, -128, -2, -67))[] 
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 []  \T1/pcr/m/n/9 show(a1 <- sparseMatrix(i= c(1:4),   j=c(2:4,1),   x = 2,   
 dimnames=dns))[] 
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 []  \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE,
 dimnames=dns))[] 
[2392]
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 []  \T1/pcr/m/n/9 a. <- sparseMatrix(i=4:1, j=1:4, dimnames=list(n4, n4), repr
="T") # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] 
[2393]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.col
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<to be read again> 
                   \relax 
l.2696 ...asA{colMeans}{colSums-methods}{colMeans}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.colSums}) has been already used, dupli
cate ignored
<to be read again> 
                   \relax 
l.2704 \aliasA{colSums}{colSums-methods}{colSums}
                                                 pdfTeX warning (ext4): destina
tion with the same identifier (name{Rfn.rowMeans}) has been already used, dupli
cate ignored
<to be read again> 
                   \relax 
l.2711 ...asA{rowMeans}{colSums-methods}{rowMeans}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.rowSums}) has been already used, dupli
cate ignored
<to be read again> 
                   \relax 
l.2719 \aliasA{rowSums}{colSums-methods}{rowSums}
                                                 
Underfull \hbox (badness 2922) in paragraph at lines 2771--2775
[]\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sparse, i.e., i
n-her-it-ing from
Underfull \hbox (badness 1728) in paragraph at lines 2771--2775
\T1/ptm/m/n/10 class [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/n/10 . 
Only ap-pli-ca-ble when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is in-her-it-ing fr
om a
Underfull \hbox (badness 1237) in paragraph at lines 2782--2785
[][][]\T1/pcr/m/n/10 dimnames[][][](x) []\T1/ptm/m/n/10 are only kept (as [][][
]\T1/pcr/m/n/10 names[][][](v)[]\T1/ptm/m/n/10 ) when the re-sult-ing []\T1/pcr
/m/n/10 v []\T1/ptm/m/n/10 is [][][]\T1/pcr/m/n/10 numeric[][][][]\T1/ptm/m/n/1
0 , since
[2394] [2395]
Underfull \hbox (badness 3547) in paragraph at lines 2888--2891
[]\T1/ptm/m/n/10 a num-ber $\OML/cmm/m/it/10 > \OT1/cmr/m/n/10 0$\T1/ptm/m/n/10
 , the es-ti-mated (1-norm) con-di-tion num-ber $[]$; when
[2396] [2397] [2398] [2399] [2400]
Underfull \hbox (badness 10000) in paragraph at lines 3290--3293
[]\T1/pcr/m/n/10 signature(from = "denseLU", logarithm = "logical")[]\T1/ptm/m/
n/10 : com-
[2401]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3345--3345
 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3352--3352
 []              \T1/pcr/m/n/9 new(  "pMatrix", Dim = c(n, n), Dimnames = c(dn[
1L], list(NULL)),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3355--3355
 []              \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = list(
NULL, NULL),[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3358--3358
 []              \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = c(lis
t(NULL), dn[2L]),[] 
[2402]
Underfull \hbox (badness 7379) in paragraph at lines 3486--3488
[]\T1/pcr/m/n/10 signature(x = "dgCMatrix")[]\T1/ptm/m/n/10 : com-putes the LU 
de-com-po-si-tion of a square
[2403] [2404] [2405]
Underfull \hbox (badness 4846) in paragraph at lines 3707--3711
[]\T1/ptm/m/n/10 Note that both []\T1/pcr/m/n/10 new(.) []\T1/ptm/m/n/10 and []
[][]\T1/pcr/m/n/10 spMatrix[][][] []\T1/ptm/m/n/10 con-struc-tors for []\T1/pcr
/m/n/10 "dgTMatrix" []\T1/ptm/m/n/10 (and other
Underfull \hbox (badness 2717) in paragraph at lines 3712--3716
[]\T1/ptm/m/n/10 However this means that a ma-trix typ-i-cally can be stored in
 more than one pos-si-ble
[2406]
Underfull \hbox (badness 5231) in paragraph at lines 3757--3762
[]\T1/ptm/m/n/10 Construct a for-mally di-ag-o-nal [][][]\T1/pcr/m/n/10 Matrix[
][][][]\T1/ptm/m/n/10 , i.e., an ob-ject in-her-it-ing from vir-tual class
Overfull \hbox (84.78088pt too wide) in paragraph at lines 3768--3768
 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri 
= TRUE, kind, cols)[] 
[2407]
Underfull \hbox (badness 10000) in paragraph at lines 3824--3827
[]\T1/pcr/m/n/10 .trDiagonal() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 .symDiagon
al() []\T1/ptm/m/n/10 are sim-ple wrap-pers, for
Underfull \hbox (badness 6792) in paragraph at lines 3824--3827
[]\T1/pcr/m/n/10 .sparseDiagonal(shape = "t") []\T1/ptm/m/n/10 and []\T1/pcr/m/
n/10 .sparseDiagonal(shape = "s")[]\T1/ptm/m/n/10 , re-spec-
[2408]
Underfull \hbox (badness 3646) in paragraph at lines 3901--3904
[]\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 dimnames[][][][]\T1/ptm/m/n/10 , a []
[][]\T1/pcr/m/n/10 list[][][][]\T1/ptm/m/n/10 , see the [][][]\T1/pcr/m/n/10 Ma
trix[][][] []\T1/ptm/m/n/10 class de-scrip-tion. Typ-i-cally
Underfull \hbox (badness 6542) in paragraph at lines 3936--3940
[]\T1/pcr/m/n/10 signature(x = "diagonalMatrix")[]\T1/ptm/m/n/10 : all these gr
oup meth-ods re-turn a
Underfull \hbox (badness 4518) in paragraph at lines 3945--3951
[]\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 
: the re-sult is from class
[2409]
Underfull \hbox (badness 10000) in paragraph at lines 3952--3956
[]\T1/pcr/m/n/10 (object = "diagonalMatrix")[]\T1/ptm/m/n/10 : Re-turns an ob-j
ect of S3 class
Underfull \hbox (badness 2318) in paragraph at lines 3962--3966
[][][]\T1/pcr/m/n/10 Diagonal[][][]() []\T1/ptm/m/n/10 as con-struc-tor of thes
e ma-tri-ces, and [][][]\T1/pcr/m/n/10 isDiagonal[][][][]\T1/ptm/m/n/10 . [][][
]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 and
[2410] [2411] [2412]
Underfull \hbox (badness 10000) in paragraph at lines 4219--4221
[]\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 :
 this group con-tains
[2413] [2414]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 4360--4360
 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe
rent from the random one[] 
[2415]
Underfull \hbox (badness 2469) in paragraph at lines 4474--4477
[]\T1/pcr/m/n/10 signature(x = "dpoMatrix")[]\T1/ptm/m/n/10 : Re-turns the [][]
[]\T1/pcr/m/n/10 determinant[][][] []\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 x[]\T1/
ptm/m/n/10 , via
[2416]
Underfull \hbox (badness 10000) in paragraph at lines 4497--4502
[]\T1/ptm/m/n/10 Currently the va-lid-ity meth-ods for these classes such as
Underfull \hbox (badness 2020) in paragraph at lines 4497--4502
[][][]\T1/pcr/m/n/10 getValidity[][][](getClass("dpoMatrix")) []\T1/ptm/m/n/10 
for ef-fi-ciency rea-sons only check the di-
Underfull \hbox (badness 1748) in paragraph at lines 4503--4512
\T1/pcr/m/n/10 error=identity), "error") []\T1/ptm/m/n/10 . In-deed, when \T1/p
tm/m/it/10 co-erc-ing \T1/ptm/m/n/10 to these classes, a ver-sion
Underfull \hbox (badness 1590) in paragraph at lines 4503--4512
\T1/ptm/m/n/10 of [][][]\T1/pcr/m/n/10 Cholesky[][][]() []\T1/ptm/m/n/10 or [][
][]\T1/pcr/m/n/10 chol[][][]() []\T1/ptm/m/n/10 is typ-i-cally used, e.g., see 
[]\T1/pcr/m/n/10 selectMethod("coerce",
Underfull \hbox (badness 6675) in paragraph at lines 4559--4566
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 Matrix[][][][]\T1/ptm/m/n/10 , typ-i-ca
lly in-her-it-ing from vir-tual class [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]
\T1/ptm/m/n/10 .
Underfull \hbox (badness 6493) in paragraph at lines 4559--4566
[][][]\T1/pcr/m/n/10 denseMatrix[][][] []\T1/ptm/m/n/10 and tra-di-tional vec-t
ors and ma-tri-ces are co-erced to
[2417]
Underfull \hbox (badness 10000) in paragraph at lines 4574--4582
[]\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing if the re-sult must in-herit from vi
r-tual class
Underfull \hbox (badness 1365) in paragraph at lines 4574--4582
[][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 . If []\T1/pcr/m/n/10 
FALSE []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 in-her-its from 
[][][]\T1/pcr/m/n/10 RsparseMatrix[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 4597--4600
[]\T1/ptm/m/n/10 Function [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/
10 , for con-struct-ing ob-jects in-her-it-ing from vir-tual class
[2418]
Underfull \hbox (badness 10000) in paragraph at lines 4641--4645
[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("dsCMatrix", ...) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 2103) in paragraph at lines 4641--4645
[]\T1/pcr/m/n/10 new("dsTMatrix", ...)[]\T1/ptm/m/n/10 , or au-to-mat-i-cally v
ia e.g., []\T1/pcr/m/n/10 as(*, "symmetricMatrix")[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1571) in paragraph at lines 4691--4694
[]\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 
: Re-turns (and stores) the
[2419] [2420]
Underfull \hbox (badness 1221) in paragraph at lines 4834--4837
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "dMatrix"[]\T1/ptm/m/n/10 , by class []
\T1/pcr/m/n/10 "dsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "sparse
Matrix"[]\T1/ptm/m/n/10 , by classes
Underfull \hbox (badness 1400) in paragraph at lines 4844--4847
[]\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10
 : if []\T1/pcr/m/n/10 uplo ==
[2421]
Underfull \hbox (badness 10000) in paragraph at lines 4896--4898
[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("dsyMatrix", ...) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 1365) in paragraph at lines 4932--4935
[]\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10
 , or []\T1/pcr/m/n/10 x = "dsyMatrix"
[2422]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4978--4978
 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ 
internally :[] 
[2423] [2424]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5084--5084
 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim 
= c(5L, 5L),[] 
Underfull \hbox (badness 3635) in paragraph at lines 5139--5143
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ddenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "triangularMatrix"[]\T1/ptm/m/n/10 , di-rectly. Cla
ss
Underfull \hbox (badness 10000) in paragraph at lines 5148--5151
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
Underfull \hbox (badness 10000) in paragraph at lines 5151--5155
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n
/10 : the
[2425] [2426] [2427] [2428]
Underfull \hbox (badness 10000) in paragraph at lines 5399--5401
[]\T1/ptm/m/n/10 a ma-trix fac-tor-iza-tion, typ-i-cally in-her-it-ing from vir
-tual class
Overfull \hbox (29.27832pt too wide) in paragraph at lines 5418--5418
 []    \T1/pcr/m/n/10 all.equal(as(x, "matrix"), as(Reduce(\TS1/cmtt/m/n/10 `\T
1/pcr/m/n/10 %*%\TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 , expand2(y)), "matrix")) 
Overfull \hbox (37.71342pt too wide) in alignment at lines 5449--5449
 [] [] 
[2429]
Underfull \hbox (badness 7064) in paragraph at lines 5477--5494
[]\T1/pcr/m/n/10 signature(x = "p?BunchKaufman")[]\T1/ptm/m/n/10 : ex-pands the
 fac-tor-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 =
Underfull \hbox (badness 3000) in paragraph at lines 5506--5513
[]\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : ex-pands the fac-to
r-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = \OML/cmm/m/it/10 P[]LU$ \T1/pt
m/m/n/10 as
Underfull \hbox (badness 2735) in paragraph at lines 5522--5529
[]\T1/pcr/m/n/10 signature(x = "CHMfactor")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/
10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L)[]\T1/p
tm/m/n/10 .
Underfull \hbox (badness 1337) in paragraph at lines 5529--5544
[]\T1/pcr/m/n/10 signature(x = "sparseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/1
0 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L, U,
Underfull \hbox (badness 2680) in paragraph at lines 5529--5544
\T1/pcr/m/n/10 Q)[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 expand(x)[["Q"]] []\T1/ptm
/m/n/10 and []\T1/pcr/m/n/10 expand2(x)[["P2."]] []\T1/ptm/m/n/10 rep-re-sent t
he same per-
Underfull \hbox (badness 5374) in paragraph at lines 5529--5544
\T1/ptm/m/n/10 mu-ta-tion ma-trix $\OML/cmm/m/it/10 P[]$ \T1/ptm/m/n/10 but hav
e op-po-site []\T1/pcr/m/n/10 margin []\T1/ptm/m/n/10 slots and in-verted []\T1
/pcr/m/n/10 perm []\T1/ptm/m/n/10 slots.
Underfull \hbox (badness 2073) in paragraph at lines 5544--5549
[]\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/10
 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(L, U, P)[]\T1/
ptm/m/n/10 .
[2430] [2431] [2432]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5752--5752
 []\T1/pcr/m/n/9 str(pores <- readMM(system.file("external/pores_1.mtx", packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5753--5753
 []\T1/pcr/m/n/9 str(utm   <- readHB(system.file("external/utm300.rua" , packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5754--5754
 []\T1/pcr/m/n/9 str(lundA <- readMM(system.file("external/lund_a.mtx" , packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5755--5755
 []\T1/pcr/m/n/9 str(lundA <- readHB(system.file("external/lund_a.rsa" , packag
e = "Matrix")))[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5756--5756
 []\T1/pcr/m/n/9 ## https://math.nist.gov/MatrixMarket/data/Harwell-Boeing/coun
terx/counterx.htm[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5757--5757
 []\T1/pcr/m/n/9 str(jgl   <- readMM(system.file("external/jgl009.mtx" , packag
e = "Matrix")))[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5763--5763
 []\T1/pcr/m/n/9 u. <- url("https://www.cise.ufl.edu/research/sparse/RB/Boeing/
msc00726.tar.gz")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5768--5768
 []\T1/pcr/m/n/9 ## Store as MatrixMarket (".mtx") file, here inside temporary 
dir./folder:[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5771--5771
 []\T1/pcr/m/n/9 file.info(MMfile)[,c("size", "ctime")] # (some confirmation of
 the file\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s)[] 
[2433]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 5781--5781
 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume
nts to sparseMatrix():[] 
[2434]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5843--5843
 []    \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans =  TRUE, left =  TRUE),  
crossprod(L, y))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5844--5844
 []    \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans =  TRUE, left = FALSE), t
crossprod(y, L))[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 5923--5923
 []\T1/pcr/m/n/10 .diag2dense(from, kind = ".", shape = "t", packed = FALSE, up
lo = "U")[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 5925--5925
 []\T1/pcr/m/n/10 .m2dense(from, class = ".ge", uplo = "U", diag = "N", trans =
 FALSE)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 5928--5928
 []\T1/pcr/m/n/10 .diag2sparse(from, kind = ".", shape = "t", repr = "C", uplo 
= "U")[] 
[2435]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 5930--5930
 []\T1/pcr/m/n/10 .m2sparse(from, class = ".gC", uplo = "U", diag = "N", trans 
= FALSE)[] 
Underfull \hbox (badness 10000) in paragraph at lines 6000--6002
[]\T1/ptm/m/n/10 a string in []\T1/pcr/m/n/10 c("trace", "sumLog", "prod", "min
", "max",
[2436]
Underfull \hbox (badness 10000) in paragraph at lines 6073--6079
[][]\T1/pcr/m/n/10 .solve.dgC.*(a, b)[]\T1/ptm/b/n/10 :  []\T1/pcr/m/n/10 .solv
e.dgC.lu(a, b) []\T1/ptm/m/n/10 needs a square ma-trix []\T1/pcr/m/n/10 a[]\T1/
ptm/m/n/10 .
Underfull \hbox (badness 10000) in paragraph at lines 6073--6079
[]\T1/pcr/m/n/10 .solve.dgC.qr(a, b) []\T1/ptm/m/n/10 needs a ``long'' ma-trix 
[]\T1/pcr/m/n/10 a[]\T1/ptm/m/n/10 , with []\T1/pcr/m/n/10 nrow(a) >= ncol(a)[]
\T1/ptm/m/n/10 .
[2437]
Underfull \hbox (badness 10000) in paragraph at lines 6087--6096
[][]\T1/pcr/m/n/10 .updateCHMfactor(object, parent, mult)[]\T1/ptm/b/n/10 :  []
\T1/pcr/m/n/10 .updateCHMfactor []\T1/ptm/m/n/10 up-
Underfull \hbox (badness 10000) in paragraph at lines 6087--6096
\T1/ptm/m/n/10 dates []\T1/pcr/m/n/10 object []\T1/ptm/m/n/10 with the re-sult 
of Cholesky fac-tor-iz-ing []\T1/pcr/m/n/10 F(parent) + mult[1] *
Underfull \hbox (badness 2443) in paragraph at lines 6087--6096
\T1/pcr/m/n/10 diag(nrow(parent))[]\T1/ptm/m/n/10 , i.e., []\T1/pcr/m/n/10 F(pa
rent) []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 mult[1] []\T1/ptm/m/n/10 times the
 iden-tity ma-trix,
[2438] [2439] [2440] [2441]pdfTeX warning (ext4): destination with the same ide
ntifier (name{Rfn.image}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6399 \aliasA{image}{image-methods}{image}
                                            [2442] [2443]
Underfull \hbox (badness 4120) in paragraph at lines 6495--6498
[]\T1/ptm/m/n/10 All meth-ods cur-rently end up call-ing the method for the [][
][]\T1/pcr/m/n/10 dgTMatrix[][][] []\T1/ptm/m/n/10 class. Use
Overfull \hbox (47.58038pt too wide) in paragraph at lines 6514--6514
 []\T1/pcr/m/n/9 stopifnot(!is.null(leg <- imgC$legend), is.list(leg$right)) # 
failed for 2 days ..[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6534--6534
 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col
/row) indices:[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 6540--6540
 [] \T1/pcr/m/n/9 I2 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE,    
    border.col=NA)[] 
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 [] \T1/pcr/m/n/9 I3 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd
=2, border.col=NA)[] 
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 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor
der.col = adjustcolor("skyblue", 1/2))[] 
[2444]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6553--6553
 []\T1/pcr/m/n/9 image(USCounties, useRaster = TRUE) # should not suffer from a
nti-aliasing[] 
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 []   \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi
ly zoom in and out[] 
[2445]
Underfull \hbox (badness 10000) in paragraph at lines 6684--6687
[]\T1/pcr/m/n/10 signature(x = "indMatrix", y = "Matrix") []\T1/ptm/m/n/10 and 
oth-ers listed by
Underfull \hbox (badness 1286) in paragraph at lines 6684--6687
[]\T1/pcr/m/n/10 showMethods("%*%", classes = "indMatrix")[]\T1/ptm/m/n/10 : ma
-trix prod-ucts im-ple-mented
Underfull \hbox (badness 10000) in paragraph at lines 6687--6690
[]\T1/pcr/m/n/10 signature(from = "numeric", to = "indMatrix")[]\T1/ptm/m/n/10 
: sup-port-ing typ-i-cal
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[]\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : s
up-port-ing []\T1/pcr/m/n/10 indMatrix
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[]\T1/pcr/m/n/10 signature(x = "indMatrix")[]\T1/ptm/m/n/10 : row and
Underfull \hbox (badness 1337) in paragraph at lines 6707--6711
[]\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : 
Kro-necker prod-uct of
[2446]
Underfull \hbox (badness 1776) in paragraph at lines 6717--6726
[]\T1/ptm/m/n/10 Fabian Scheipl at `\T1/pcr/m/n/10 uni-muenchen.de\T1/ptm/m/n/1
0 ', build-ing on the ex-ist-ing class [][][]\T1/pcr/m/n/10 pMatrix[][][] []\T1
/ptm/m/n/10 af-ter
Underfull \hbox (badness 1253) in paragraph at lines 6717--6726
\T1/ptm/m/n/10 a nice hike's con-ver-sa-tion with Mar-tin Maech-ler. Meth-ods f
or [][][]\T1/pcr/m/n/10 crossprod[][][](x, y) []\T1/ptm/m/n/10 and
[2447]
Underfull \hbox (badness 1509) in paragraph at lines 6810--6812
[]\T1/ptm/m/n/10 an in-te-ger off-set, in-di-cat-ing that the re-sult should be
 a per-mu-ta-tion of
Underfull \hbox (badness 10000) in paragraph at lines 6837--6841
[]\T1/pcr/m/n/10 invertPerm(p) []\T1/ptm/m/n/10 re-turns an in-te-ger vec-tor o
f length []\T1/pcr/m/n/10 length(p) []\T1/ptm/m/n/10 such that
Underfull \hbox (badness 4441) in paragraph at lines 6837--6841
[]\T1/pcr/m/n/10 p[invertPerm(p)] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 invertP
erm(p)[p] []\T1/ptm/m/n/10 are both []\T1/pcr/m/n/10 seq_along(p)[]\T1/ptm/m/n/
10 , i.e., the
[2448]
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 []\T1/pcr/m/n/9 ## Product of transpositions (1 2)(2 1)(4 3)(6 8)(10 1) = (3 4
)(6 8)(1 10)[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.anyNA}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6888 \aliasA{anyNA}{is.na-methods}{anyNA}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.is.finite}) has been already used, duplicate 
ignored
<to be read again> 
                   \relax 
l.6895 ...asA{is.finite}{is.na-methods}{is.finite}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.is.infinite}) has been already used, d
uplicate ignored
<to be read again> 
                   \relax 
l.6903 ...is.infinite}{is.na-methods}{is.infinite}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.is.na}) has been already used, duplica
te ignored
<to be read again> 
                   \relax 
l.6911 \aliasA{is.na}{is.na-methods}{is.na}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.is.nan}) has been already used, duplicate ign
ored
<to be read again> 
                   \relax 
l.6918 \aliasA{is.nan}{is.na-methods}{is.nan}
                                              [2449] [2450]pdfTeX warning (ext4
): destination with the same identifier (name{Rfn.isSymmetric}) has been alread
y used, duplicate ignored
<to be read again> 
                   \relax 
l.7077 ...etric}{isSymmetric-methods}{isSymmetric}
                                                   [2451]
Overfull \hbox (138.78088pt too wide) in paragraph at lines 7124--7124
 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub
le.eps, tol1 = 8 * tol, ...)[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 7126--7126
 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub
le.eps, ...)[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 7181--7181
 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if
 not "formally"[] 
[2452]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 7185--7185
 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g
eneric from base[] 
[2453]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 7268--7268
 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even 
if not "formally"[] 
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 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames 
= FALSE) 
[2454]
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 []\T1/pcr/m/n/9 stopifnot(all(K1 <- KhatriRao(nd, zm) == 0), identical(dim(K1)
, c(12L, 4L)),[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7372--7372
 []          \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2)
, c(12L, 4L)))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7379--7379
 []  \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di
mnames(Kmd)))[] 
[2455]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.kro
necker}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7453 ...kronecker}{kronecker-methods}{kronecker}
                                                   [2456]
Underfull \hbox (badness 1062) in paragraph at lines 7550--7553
[]\T1/pcr/m/n/10 ldenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den
se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both
[2457]
Underfull \hbox (badness 6063) in paragraph at lines 7576--7579
[]\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call
y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2458pdfTeX warning (ext4): destination with the same identifier (name{Rfn.*,nd
iMatrix,Matrix.Rdash.method}) has been already used, duplicate ignored
<argument> ...shipout:D \box_use:N \l_shipout_box 
                                                  
l.7705 crossprod(nM) # pattern sparse
                                     ]
Underfull \hbox (badness 2635) in paragraph at lines 7736--7741
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/
10 "ldenseMatrix"[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 4229) in paragraph at lines 7736--7741
\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class 
[]\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri
x"[]\T1/ptm/m/n/10 , by class
Underfull \hbox (badness 10000) in paragraph at lines 7744--7747
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ); use, e.g.,
[2459]
Underfull \hbox (badness 10000) in paragraph at lines 7801--7811
[]\T1/pcr/m/n/10 lsTMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltTMatrix[]\T
1/ptm/m/n/10 ) or in com-pressed column-oriented form (class
Underfull \hbox (badness 1242) in paragraph at lines 7801--7811
[][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pc
r/m/n/10 lgCMatrix[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lsCMatrix[]\T1/ptm/m/n/10
 , and []\T1/pcr/m/n/10 ltCMatrix[]\T1/ptm/m/n/10 ) or--\T1/ptm/m/it/10 rarely\
T1/ptm/m/n/10 --in
[2460]
Underfull \hbox (badness 3179) in paragraph at lines 7883--7886
[]\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal
ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2461]
Underfull \hbox (badness 10000) in paragraph at lines 7968--7971
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2462]
Underfull \hbox (badness 10000) in paragraph at lines 8029--8032
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2463] [2464] [2465]
Underfull \hbox (badness 10000) in paragraph at lines 8267--8270
[]\T1/ptm/m/n/10 vector of all non-zero en-tries of []\T1/pcr/m/n/10 x[]\T1/ptm
/m/n/10 ; ex-ists \T1/ptm/b/n/10 only \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 as(x
,
Underfull \hbox (badness 1490) in paragraph at lines 8289--8291
[]\T1/pcr/m/n/10 mat2triplet() []\T1/ptm/m/n/10 is con-cep-tu-ally the \T1/ptm/
m/it/10 in-verse \T1/ptm/m/n/10 func-tion of [][][]\T1/pcr/m/n/10 spMatrix[][][
] []\T1/ptm/m/n/10 and (one case of)
[2466]pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rp
cent.*.Rpcent.}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.8310 ...*\%}{matmult-methods}{.Rpcent.*.Rpcent.}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.crossprod}) has been already used, dup
licate ignored
<to be read again> 
                   \relax 
l.8384 ...A{crossprod}{matmult-methods}{crossprod}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.tcrossprod}) has been already used, du
plicate ignored
<to be read again> 
                   \relax 
l.8460 ...tcrossprod}{matmult-methods}{tcrossprod}
                                                  
Underfull \hbox (badness 1881) in paragraph at lines 8546--8552
\T1/ptm/m/n/10 ally im-ple-mented ef-fi-ciently with-out com-put-ing [][][]\T1/
pcr/m/n/10 t[][][](.)[]\T1/ptm/m/n/10 's un-nec-es-sar-ily. They also re-turn
[2467]
Underfull \hbox (badness 10000) in paragraph at lines 8615--8618
[]\T1/pcr/m/n/10 signature(x = "dgeMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
Underfull \hbox (badness 10000) in paragraph at lines 8618--8623
[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-tures (use
Underfull \hbox (badness 3557) in paragraph at lines 8618--8623
[]\T1/pcr/m/n/10 showMethods("%*%", class="dtrMatrix")[]\T1/ptm/m/n/10 ): ma-tr
ix mul-ti-pli-ca-tion. Mul-ti-
Underfull \hbox (badness 6608) in paragraph at lines 8623--8627
\T1/ptm/m/n/10 sig-na-tures, use []\T1/pcr/m/n/10 showMethods("crossprod", clas
s = "dgeMatrix")[]\T1/ptm/m/n/10 , ma-trix
Underfull \hbox (badness 1552) in paragraph at lines 8633--8634
[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-
[2468] [2469] [2470]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.det}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.8856 \aliasA{det}{Matrix-class}{det}
                                      
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[]\T1/pcr/m/n/10 signature(x = "Matrix", value = "list")[]\T1/ptm/m/n/10 : set 
the []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 to a
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Underfull \hbox (badness 10000) in paragraph at lines 8955--8957
[]\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This 
re-lies on a cor-rect
[2471] [2472] [2473]
Underfull \hbox (badness 10000) in paragraph at lines 9125--9129
[]\T1/pcr/m/n/10 CholeskyFactorization[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Bunch
KaufmanFactorization[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 9148--9150
[]\T1/pcr/m/n/10 signature(x = "MatrixFactorization", logarithm =
Underfull \hbox (badness 10000) in paragraph at lines 9165--9168
[]\T1/pcr/m/n/10 signature(obj = "MatrixFactorization")[]\T1/ptm/m/n/10 : re-tu
rns []\T1/pcr/m/n/10 obj []\T1/ptm/m/n/10 with
Underfull \hbox (badness 3019) in paragraph at lines 9174--9177
[]\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 CholeskyFactorization[]\T
1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 Cholesky[][][][]\T1/ptm/m/n/10 , [][
][]\T1/pcr/m/n/10 pCholesky[][][][]\T1/ptm/m/n/10 , and
[2474]
Underfull \hbox (badness 10000) in paragraph at lines 9178--9180
[]\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 BunchKaufmanFactorization
[]\T1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 BunchKaufman[][][] []\T1/ptm/m/n
/10 and
Underfull \hbox (badness 10000) in paragraph at lines 9193--9196
[]\T1/ptm/m/n/10 Generic func-tions [][][]\T1/pcr/m/n/10 expand1[][][] []\T1/pt
m/m/n/10 and [][][]\T1/pcr/m/n/10 expand2[][][] []\T1/ptm/m/n/10 for con-struct
-ing ma-trix fac-tors from
Underfull \hbox (badness 1062) in paragraph at lines 9222--9225
[]\T1/pcr/m/n/10 ndenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den
se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both
Underfull \hbox (badness 6063) in paragraph at lines 9254--9257
[]\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call
y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2475]
Underfull \hbox (badness 3312) in paragraph at lines 9311--9313
[]\T1/ptm/m/n/10 logical in-di-cat-ing if []\T1/pcr/m/n/10 X <- (X + t(X))/2 []
\T1/ptm/m/n/10 should be done, af-ter []\T1/pcr/m/n/10 X <-
[2476] [2477]
Overfull \hbox (85.38034pt too wide) in paragraph at lines 9414--9414
 []   \T1/pcr/m/n/9 all.equal(n.A.m, unname(as.matrix(n.A$mat)), tolerance = 1e
-15)# seen rel.d.= 1.46e-16[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 9454--9454
 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a
ll in this example[] 
[2478]
Underfull \hbox (badness 2635) in paragraph at lines 9507--9512
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/
10 "ndenseMatrix"[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 4229) in paragraph at lines 9507--9512
\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class 
[]\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri
x"[]\T1/ptm/m/n/10 , by class
Underfull \hbox (badness 10000) in paragraph at lines 9515--9518
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ); use, e.g.,
[2479]
Underfull \hbox (badness 2521) in paragraph at lines 9583--9589
[]\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N
ote that these co-er-cions
[2480]
Underfull \hbox (badness 1867) in paragraph at lines 9696--9698
[]\T1/ptm/m/n/10 fast sim-
[2481]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.nor
m}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9738 \aliasA{norm}{norm-methods}{norm}
                                         [2482]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9833--9833
 []\T1/pcr/m/n/9 A <- sparseMatrix(i, j, x = x)                      ##  8 x 10
 "dgCMatrix"[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9834--9834
 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10
 "dsCMatrix"[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9835--9835
 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10
 "dtCMatrix"[] 
Underfull \hbox (badness 2401) in paragraph at lines 9880--9890
[]\T1/ptm/m/n/10 These can be stored in the ``triplet'' form ([][][]\T1/pcr/m/n
/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pcr/m/n/10 ngTMatri
x[]\T1/ptm/m/n/10 ,
[2483]
Underfull \hbox (badness 3179) in paragraph at lines 9951--9954
[]\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal
ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2484]
Underfull \hbox (badness 10000) in paragraph at lines 10031--10034
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2485]
Underfull \hbox (badness 10000) in paragraph at lines 10095--10098
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2486]
Underfull \hbox (badness 10000) in paragraph at lines 10169--10171
[]\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , 
though
[2487] [2488] [2489]
Underfull \hbox (badness 10000) in paragraph at lines 10383--10386
[]\T1/pcr/m/n/10 signature(x = "pMatrix", y = "Matrix") []\T1/ptm/m/n/10 and ot
h-ers listed by
Underfull \hbox (badness 8189) in paragraph at lines 10383--10386
[]\T1/pcr/m/n/10 showMethods("%*%", classes = "pMatrix")[]\T1/ptm/m/n/10 : ma-t
rix prod-ucts im-ple-mented
Underfull \hbox (badness 10000) in paragraph at lines 10386--10390
[]\T1/pcr/m/n/10 signature(from = "numeric", to = "pMatrix")[]\T1/ptm/m/n/10 : 
sup-port-ing typ-i-cal
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[]\T1/pcr/m/n/10 signature(a = "pMatrix", b = "missing")[]\T1/ptm/m/n/10 : the 
in-verse per-mu-ta-tion ma-trix,
[2490]
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 []               \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD
iag = TRUE,[] 
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 []\T1/pcr/m/n/10 printSpMatrix(x, digits = NULL, maxp = max(100L, getOption("m
ax.print")),[] 
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 []              \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln
ames = TRUE,[] 
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 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption("
max.print")),[] 
[2491]
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 []              \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln
ames = TRUE,[] 
Underfull \hbox (badness 3989) in paragraph at lines 10499--10509
[]\T1/ptm/m/n/10 logical or string spec-i-fy-ing if and how col-umn names of []
\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 should
Underfull \hbox (badness 10000) in paragraph at lines 10499--10509
\T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro
m
[2492]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr}
) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10601 \aliasA{qr}{qr-methods}{qr}
                                    [2493] [2494]
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 []    \T1/pcr/m/n/9 all.equal(qr.coef(qr.A1, b), drop(solve(crossprod(A1), cro
ssprod(A1, b))))[] 
[2495]
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 []    \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 qr.coef\TS1/pcr/m/n/9 ' \
T1/pcr/m/n/9 computes unique least squares solution of "nearby" problem[] 
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 []    \T1/pcr/m/n/9 ## Z x = b for some full rank Z ~ A, currently without war
ning {FIXME} ![] 
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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Underfull \hbox (badness 2005) in paragraph at lines 10845--10851
[]\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 
qr[][][](x, tol,
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[]\T1/ptm/m/n/10 is for back com-pat-i-bil-ity; for dense []\T1/pcr/m/n/10 x[]\
T1/ptm/m/n/10 , it cor-re-sponds to
[2497] [2498]
Overfull \hbox (85.38034pt too wide) in paragraph at lines 10959--10959
 []\T1/pcr/m/n/9 ## The meaning of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 tol\TS1/pcr/m/
n/9 ' \T1/pcr/m/n/9 for method="qrLINPACK" and *dense* x is not entirely "scale
 free"[] 
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 []\T1/pcr/m/n/9 sapply(meths, function(.m.) rankMatrix(M15, method = .m., tol 
= 1e-7)) # all 14[] 
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 []\T1/pcr/m/n/9 (st1 <- system.time(r1 <- rankMatrix(L)))                # war
ning+ ~1.5 sec (2013)[] 
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 []\T1/pcr/m/n/9 (st2 <- system.time(r2 <- rankMatrix(L, method = "qr"))) # con
siderably faster![] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rcond}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11002 \aliasA{rcond}{rcond-methods}{rcond}
                                             [2499] [2500]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11118--11118
 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not
 have full rank[] 
[2501] [2502]
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\T1/ptm/m/n/10 dices, if not []\T1/pcr/m/n/10 symmetric [][]sample.int[][][](nr
ow*ncol, nnz)[]\T1/ptm/m/n/10 , then---if []\T1/pcr/m/n/10 rand.x []\T1/ptm/m/n
/10 is not
[2503] [2504]
Underfull \hbox (badness 5147) in paragraph at lines 11441--11444
[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 SchurFactorization[][][][]\T1/ptm/m
/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1/pt
m/m/n/10 , by class
[2505]
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[]\T1/pcr/m/n/10 signature(from = "Schur", logarithm = "logical")[]\T1/ptm/m/n/
10 : com-putes
[2506] [2507]
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 []    \T1/pcr/m/n/9 all.equal(e1, e3[order(Mod(e3), decreasing = TRUE)], toler
ance = 1e-13)[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solve}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11630 \aliasA{solve}{solve-methods}{solve}
                                             [2508]
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 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", "
D", "P", "Pt"), ...)[] 
Underfull \hbox (badness 1147) in paragraph at lines 11766--11772
[]\T1/ptm/m/n/10 a vec-tor, [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/
n/10 , ma-trix, or [][][]\T1/pcr/m/n/10 Matrix[][][] []\T1/ptm/m/n/10 sat-is-fy
-ing []\T1/pcr/m/n/10 NROW(b) ==
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[]\T1/ptm/m/n/10 Methods for dense []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are buil
t on 14 LA-PACK rou-tines: class []\T1/pcr/m/n/10 d..Matrix[]\T1/ptm/m/n/10 , w
here
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[]\T1/ptm/m/n/10 Methods for sparse []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are bui
lt on CXS-parse rou-tines []\T1/pcr/m/n/10 cs_lsolve[]\T1/ptm/m/n/10 , []\T1/pc
r/m/n/10 cs_usolve[]\T1/ptm/m/n/10 , and
[2509]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 11889--11889
 []\T1/pcr/m/n/9 image(ia0 <- solve(a, tol = 0)) # checker board, dense [but re
ally, a is singular!][] 
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 []  \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on
 [FIXME ??] only[] 
[2510]
Underfull \hbox (badness 10000) in paragraph at lines 11916--11919
[]\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu
la and data frame
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 []   \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs
parse)[] 
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 []   \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs
parse,[] 
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[]\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][
][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject,
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[]\T1/ptm/m/n/10 character string or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or 
(co-er-ca-ble to)
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[]\T1/pcr/m/n/10 "[][]sparseMatrix[][][]"[]\T1/ptm/m/n/10 , spec-i-fy-ing the c
on-trasts to be ap-plied to the
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[]\T1/ptm/m/n/10 should fac-tors have un-used lev-els dropped? The de-fault for
Underfull \hbox (badness 2828) in paragraph at lines 11963--11967
[]\T1/pcr/m/n/10 sparse.model.matrix []\T1/ptm/m/n/10 has been changed to []\T1
/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , 2010-07, for
[2511]
Underfull \hbox (badness 1668) in paragraph at lines 11978--11983
[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/
m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc
r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse
Underfull \hbox (badness 3291) in paragraph at lines 12005--12010
[]\T1/pcr/m/n/10 model.Matrix(sparse = TRUE) []\T1/ptm/m/n/10 from pack-age [][
]\T1/ptm/b/n/10 Ma-trix-Mod-els[][] \T1/ptm/m/n/10 may be nowa-days be
Underfull \hbox (badness 2073) in paragraph at lines 12005--12010
\T1/ptm/m/n/10 prefer-able to []\T1/pcr/m/n/10 sparse.model.matrix[]\T1/ptm/m/n
/10 , as []\T1/pcr/m/n/10 model.Matrix []\T1/ptm/m/n/10 re-turns an ob-ject of 
class
[2512]
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 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0, 0),[] 
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 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop=FALSE),"CsparseMatrix"), dim(M)
 == c(3, 0),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12060--12060
 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0,12),[] 
[2513]
Underfull \hbox (badness 2961) in paragraph at lines 12122--12125
[]\T1/pcr/m/n/10 signature(from = "sparseLU", logarithm = "logical")[]\T1/ptm/m
/n/10 : com-
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 []\T1/pcr/m/n/9 A <- as(readMM(system.file("external", "pores_1.mtx", package 
= "Matrix")),[] 
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
[2514]
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(dn[1L
], list(NULL)),[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
Underfull \hbox (badness 10000) in paragraph at lines 12211--12213
[]\T1/ptm/m/n/10 This in-ter-face is rec-om-mended over di-rect con-struc-tion 
via calls such as
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 []             \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = 
TRUE,[] 
[2515]
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\T1/ptm/m/n/10 of the sparse ma-trix re-sult, i.e., spec-i-fy-ing one of the vi
r-tual classes
[2516]
Underfull \hbox (badness 10000) in paragraph at lines 12345--12348
[]\T1/ptm/m/n/10 The stan-dard \T1/phv/m/n/10 R [][][]\T1/pcr/m/n/10 xtabs[][][
](*, sparse=TRUE)[]\T1/ptm/m/n/10 , for sparse ta-bles and
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 []\T1/pcr/m/n/9 (A <- sparseMatrix(i, j, x = x))                    ##  8 x 10
 "dgCMatrix"[] 
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 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10
 "dsCMatrix"[] 
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 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10
 "dtCMatrix"[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12368--12368
 []\T1/pcr/m/n/9 (AA <- sparseMatrix(c(1,3:8), c(2,9,6:10), x = 7 * (1:7), dims
 = c(10,20)))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12371--12371
 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar
e consistent[] 
[2517]
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 []\T1/pcr/m/n/9 ## pointer vectors can be used, and the (i,x) slots are sorted
 if necessary:[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 12395--12395
 []\T1/pcr/m/n/9 m <- sparseMatrix(i = c(3,1, 3:2, 2:1), p= c(0:2, 4,4,6), x = 
1:6, dimnames = dn)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12421--12421
 []\T1/pcr/m/n/9 ## pointers example in converting from other sparse matrix rep
resentations.[] 
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 []   \T1/pcr/m/n/9 nzchar(dfil <- system.file("extdata", "rua_32_ax.rua", pack
age = "SparseM"))) {[] 
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 []  \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims =
 X@dimension)[] 
[2518]
Underfull \hbox (badness 6842) in paragraph at lines 12516--12519
[]\T1/pcr/m/n/10 (x = "sparseMatrix", logarithm=TRUE)[]\T1/ptm/m/n/10 : [][][]\
T1/pcr/m/n/10 determinant[][][]() []\T1/ptm/m/n/10 meth-ods
Underfull \hbox (badness 10000) in paragraph at lines 12551--12555
[][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/10 , and its ref-er-ences,
 such as [][][]\T1/pcr/m/n/10 xtabs[][][](*, sparse=TRUE)[]\T1/ptm/m/n/10 , or
[2519] [2520]
Underfull \hbox (badness 2961) in paragraph at lines 12735--12738
[]\T1/pcr/m/n/10 signature(from = "sparseQR", logarithm = "logical")[]\T1/ptm/m
/n/10 : com-
[2521]
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[]\T1/ptm/m/n/10 The many aux-il-iary func-tions for QR fac-tor-iza-tions: [][]
[]\T1/pcr/m/n/10 qr.Q[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.R[][][][]
\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.X[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 qr.coef[][][][]\T1/ptm/m/n/10 ,
[2522]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12861--12861
 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(m, m), Dimnames = c(dn[1L
], list(NULL)),[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
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Overfull \hbox (42.18039pt too wide) in paragraph at lines 12883--12883
 []    \T1/pcr/m/n/9 ae2(qrc <- qr.coef  (qr.A, b), with(e.qr.A, solve(R1 %*% P
2., t(qrQ)) %*% b))[] 
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[]\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case
 a
[2524]
Underfull \hbox (badness 2970) in paragraph at lines 13039--13045
[]\T1/ptm/m/n/10 Sparse Vec-tor Classes: The vir-tual mother class []\T1/pcr/m/
n/10 "sparseVector" []\T1/ptm/m/n/10 has the five ac-
Underfull \hbox (badness 3679) in paragraph at lines 13039--13045
\T1/ptm/m/n/10 tual daugh-ter classes []\T1/pcr/m/n/10 "dsparseVector"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "isparseVector"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "
lsparseVector"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 13084--13087
[]\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/
n/10 co-erces sparse
[2525]
Underfull \hbox (badness 10000) in paragraph at lines 13118--13123
[]\T1/pcr/m/n/10 (x = "nsparseVector")[]\T1/ptm/m/n/10 : re-turn [][][]\T1/pcr/
m/n/10 logical[][][] []\T1/ptm/m/n/10 or
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[][][]\T1/pcr/m/n/10 sparseVector[][][]() []\T1/ptm/m/n/10 for friendly con-str
uc-tion of sparse vec-tors (apart from []\T1/pcr/m/n/10 as(*,
[2526]
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Overfull \hbox (24.78088pt too wide) in paragraph at lines 13232--13232
 []\T1/pcr/m/n/10 spMatrix(nrow, ncol, i = integer(0L), j = integer(0L), x = do
uble(0L)) 
Underfull \hbox (badness 2310) in paragraph at lines 13259--13265
[][][]\T1/pcr/m/n/10 Matrix[][][](*, sparse=TRUE) []\T1/ptm/m/n/10 for the more
 usual con-struc-tor of such ma-tri-ces. Then,
[2528]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[<.
Rdash.}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.13311 ...\Rdash{}}{subassign-methods}{[<.Rdash.}
                                                  
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[]\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back
[2529]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.13445 \aliasA{[}{subscript-methods}{[}
                                         [2530]
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\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 triangularMatrix[][][][]\T1/ptm/m/n
/10 , and, e.g., [][][]\T1/pcr/m/n/10 dsyMatrix[][][] []\T1/ptm/m/n/10 for nu-m
eric \T1/ptm/m/it/10 dense \T1/ptm/m/n/10 ma-tri-ces, or
[2531]
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[]\T1/ptm/m/n/10 These are generic func-tions with sev-eral meth-ods for dif-fe
r-ent ma-trix classes, use e.g.,
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[]\T1/pcr/m/n/10 symmpart(x) []\T1/ptm/m/n/10 re-turns a sym-met-ric ma-trix, i
n-her-it-ing from [][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 o
r
[2532]
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[]\T1/pcr/m/n/10 skewpart(x) []\T1/ptm/m/n/10 re-turns a skew-symmetric ma-trix
, in-her-it-ing from [][][]\T1/pcr/m/n/10 generalMatrix[][][][]\T1/ptm/m/n/10 ,
[2533]
Underfull \hbox (badness 6641) in paragraph at lines 13747--13750
[]\T1/ptm/m/n/10 Currently, [][][]\T1/pcr/m/n/10 Schur[][][][]\T1/ptm/m/n/10 , 
[][][]\T1/pcr/m/n/10 isSymmetric[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 as
() []\T1/ptm/m/n/10 (i.e. [][][]\T1/pcr/m/n/10 coerce[][][][]\T1/ptm/m/n/10 ) h
ave meth-ods with
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 "TsparseMatrix" []\T1/ptm/m/n/10 class is
 the vir-tual class of all sparse ma-tri-ces coded in
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\T1/ptm/m/n/10 triplet form. Since it is a vir-tual class, no ob-jects may be c
re-ated from it. See
[2534] [2535]
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[][][]\T1/pcr/m/n/10 pack[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 unpac
k[][][][]\T1/ptm/m/n/10 ; its vir-tual "com-ple-ment" []\T1/pcr/m/n/10 "[][]pac
kedMatrix[][][]"[]\T1/ptm/m/n/10 ; its proper sub-classes
[2536]
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[]\T1/ptm/m/n/10 GAL lat-tice file `\T1/pcr/m/n/10 usc_q.GAL\T1/ptm/m/n/10 ' (r
e-trieved in 2008 from
[2537] [2538] [2539]) (./boot-pkg.tex [2540]
Chapter 18.
[2541] [2542] [2543] [2544] [2545] [2546] [2547]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 532--532
 []\T1/pcr/m/n/10 boot(data, statistic, R, sim = "ordinary", stype = c("i", "f"
, "w"), 
[2548]
Underfull \hbox (badness 1325) in paragraph at lines 570--577
[]\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sim-u-la-tion r
e-quired. Pos-si-ble
Underfull \hbox (badness 1275) in paragraph at lines 585--590
[]\T1/ptm/m/n/10 An in-te-ger vec-tor or fac-tor spec-i-fy-ing the strata for m
ulti-sample prob-
[2549] [2550] [2551]
Underfull \hbox (badness 1881) in paragraph at lines 826--828
[]\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi
-cient boot-strap sim-u-la-tion.
Underfull \hbox (badness 6493) in paragraph at lines 853--857
[][][]\T1/pcr/m/n/10 boot.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bo
ot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 censboot[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 empinf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 j
ack.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 tilt.boot[][][][]\T
1/ptm/m/n/10 ,
[2552]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 887--887
 []\T1/pcr/m/n/9 nuke.lm <- glm(log(cost) ~ date+log(cap)+ne+ct+log(cum.n)+pt, 
data = nuke)[] 
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[2554] [2555]
Underfull \hbox (badness 1496) in paragraph at lines 1084--1093
[]\T1/ptm/m/n/10 If sup-plied, a value to be used as an es-ti-mate of the vari-
ance of the
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\T1/ptm/m/n/10 statis-tic for the nor-mal ap-prox-i-ma-tion and stu-den-tized i
n-ter-vals. If it
Underfull \hbox (badness 2343) in paragraph at lines 1084--1093
\T1/ptm/m/n/10 is not sup-plied and []\T1/pcr/m/n/10 length(index) []\T1/ptm/m/
n/10 is 2 then []\T1/pcr/m/n/10 var.t0 []\T1/ptm/m/n/10 de-faults to
Underfull \hbox (badness 2150) in paragraph at lines 1105--1111
[]\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est. The de-fa
ult value is
[2556] [2557] [2558] [2559]
Underfull \hbox (badness 1571) in paragraph at lines 1445--1447
[]\T1/ptm/m/n/10 Rawlings, J.O. (1988) \T1/ptm/m/it/10 Ap-plied Re-gres-sion An
al-y-sis\T1/ptm/m/n/10 . Wadsworth and Brooks/Cole Statis-
[2560] [2561] [2562] [2563] [2564]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1738--1738
 []\T1/pcr/m/n/10 censboot(data, statistic, R, F.surv, G.surv, strata = matrix(
1,n,2), 
[2565] [2566] [2567]
Underfull \vbox (badness 10000) has occurred while \output is active [2568]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 2013--2013
 []\T1/pcr/m/n/9 mel.cox <- coxph(Surv(time, status == 1) ~ ns(thickness, df=4)
 + strata(ulcer),[] 
[2569]
Underfull \hbox (badness 6268) in paragraph at lines 2084--2086
[]\T1/ptm/m/n/10 The length of time (in months) that the res-i-dent spent at Ch
an-ning House.
[2570] [2571] [2572]
Underfull \hbox (badness 1565) in paragraph at lines 2338--2343
[]\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est on the ori
g-i-nal data set
[2573]
Underfull \hbox (badness 4595) in paragraph at lines 2363--2368
\T1/ptm/m/n/10 are passed un-changed ev-ery time []\T1/pcr/m/n/10 boot.out$stat
istic []\T1/ptm/m/n/10 is called.
Underfull \hbox (badness 1881) in paragraph at lines 2432--2434
[]\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi
-cient boot-strap sim-u-la-tion.
Underfull \hbox (badness 2057) in paragraph at lines 2440--2441
[][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 empinf[]
[][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 k3.linear[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 linear.approx[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
saddle.distn[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.spline[][][][]
\T1/ptm/m/n/10 ,
[2574] [2575]
Underfull \hbox (badness 1077) in paragraph at lines 2536--2540
[]\T1/ptm/m/n/10 The un-bi-ased es-ti-ma-tor uses a mul-ti-plier of []\T1/pcr/m
/n/10 n/((n-1)*(n-2)) []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 n []\T1/ptm/m/n/1
0 is the sam-ple
Underfull \hbox (badness 1112) in paragraph at lines 2536--2540
\T1/ptm/m/n/10 size, if []\T1/pcr/m/n/10 unbiased []\T1/ptm/m/n/10 is []\T1/pcr
/m/n/10 FALSE []\T1/ptm/m/n/10 then a mul-ti-plier of []\T1/pcr/m/n/10 1/n []\T
1/ptm/m/n/10 is used. This is mul-ti-plied by
[2576] [2577] [2578] [2579] [2580]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2895--2895
 []\T1/pcr/m/n/10 EEF.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t 
= 25, 
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 []\T1/pcr/m/n/10 EL.profile(y, tmin  =  min(y) + 0.1, tmax = max(y) - 0.1, n.t
  =  25,[] 
[2581] [2582] [2583]
Underfull \hbox (badness 3861) in paragraph at lines 3105--3108
[][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.arr
ay[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.ci[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 control[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 jack
.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 linear.approx[][][][]\
T1/ptm/m/n/10 ,
[2584]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 3158--3158
 []\T1/pcr/m/n/10 envelope(boot.out = NULL, mat = NULL, level = 0.95, index = 1
:ncol(mat)) 
[2585] [2586] [2587]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3378--3378
 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t
he resampling 
[2588] [2589] [2590] [2591] [2592] [2593] [2594]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838
 []             \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q
 = NULL)[] 
[2595] [2596]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977
 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 =
 grav.z0[3])[] 
[2597] [2598] [2599] [2600]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259
 []\T1/pcr/m/n/9 #  To draw the jackknife-after-bootstrap plot for the head siz
e data as in 
[2601] [2602]
Underfull \hbox (badness 10000) in paragraph at lines 4362--4364
[]\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o
f
Underfull \hbox (badness 1430) in paragraph at lines 4371--4375
\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the
r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a
re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to
[2603] [2604] [2605] [2606] [2607] [2608] [2609] [2610] [2611]
Underfull \hbox (badness 3000) in paragraph at lines 4959--4962
[]\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put 
of a call to
[2612] [2613] [2614] [2615]
Underfull \hbox (badness 2293) in paragraph at lines 5238--5241
[]\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the 
boot-strap
Underfull \hbox (badness 1668) in paragraph at lines 5238--5241
\T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl
os-est to
[2616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317
 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat
a = grav1[, 2])[] 
[2617] [2618] [2619] [2620] [2621] [2622] [2623] [2624]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866
 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c
ity.sp1$spa[1][] 
[2625]
Underfull \hbox (badness 1127) in paragraph at lines 5988--6006
[]\T1/ptm/m/n/10 etc. un-til a point is found with a cdf ap-prox-i-ma-tion less
 than []\T1/pcr/m/n/10 min(alpha)/10[]\T1/ptm/m/n/10 , then
[2626]
Underfull \hbox (badness 2837) in paragraph at lines 6021--6024
[]\T1/ptm/m/n/10 The re-turned value is an ob-ject of class []\T1/pcr/m/n/10 "s
addle.distn"[]\T1/ptm/m/n/10 . See the help file for
[2627] [2628] [2629] [2630]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6306--6306
 []\T1/pcr/m/n/9 # This example is taken from Exercise 7.5 of Gill, Murray and 
Wright (1991). 
[2631] [2632]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6495--6495
 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t
he resampling 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6497--6497
 []\T1/pcr/m/n/9 # value of the test statistic 1.84.  In the book exponential t
ilting was used[] 
[2633] [2634] [2635]
Underfull \hbox (badness 1596) in paragraph at lines 6742--6746
[]\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sec-ond ar-gu-m
ent ex-pected by
[2636] [2637]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6902--6902
 []                        \T1/pcr/m/n/9 stype = "i", sim = "balanced", alpha =
 c(0.05, 0.95),[] 
[2638] [2639] [2640] [2641] [2642] [2643] [2644] [2645]) (./class-pkg.tex
[2646]
Chapter 19.
[2647] [2648] [2649] [2650] [2651] [2652] [2653] [2654] [2655] [2656] [2657]
[2658] [2659] [2660]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1006--1006
 []    \T1/pcr/m/n/9 alpha = list(seq(0.05, 0, length.out = 1e4), seq(0.02, 0, 
length.out = 1e5)),[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1007--1007
 []    \T1/pcr/m/n/9 radii = list(seq(8, 1, length.out = 1e4), seq(4, 1, length
.out = 1e5)))[] 
[2661] [2662]) (./cluster-pkg.tex
Chapter 20.
[2663] [2664] [2665]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 253--253
 []  \T1/pcr/m/n/9 all.equal(a.wgt [iC], agnes(d.vr, method="flexible", par.met
hod = 0.5)[iC])   ,[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 254--254
 []  \T1/pcr/m/n/9 all.equal(a.sing[iC], agnes(d.vr, method="flex", par.method=
 c(.5,.5,0, -.5))[iC]),[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 255--255
 []  \T1/pcr/m/n/9 all.equal(a.comp[iC], agnes(d.vr, method="flex", par.method=
 c(.5,.5,0, +.5))[iC]))[] 
[2666] [2667]
Underfull \vbox (badness 10000) has occurred while \output is active [2668]
[2669]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 519--519
 []           \T1/pcr/m/n/10 col = c(2, 0), border = 0, axes = TRUE, frame.plot
 = axes,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 523--523
 []           \T1/pcr/m/n/10 yaxRight = fromLeft, y.mar = 2.4 + max.strlen/2.5,
 ...)[] 
[2670] [2671]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 638--638
 []      \T1/pcr/m/n/10 keep.data = medoids.x, rngR = FALSE, pamLike = FALSE, c
orrect.d = TRUE)[] 
[2672] [2673] [2674]
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[][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en
ces; [][][]\T1/pcr/m/n/10 clara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 pam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\
T1/ptm/m/n/10 ,
[2675]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 835--835
 []\T1/pcr/m/n/9 ## those that are not always in same cluster (5 out of 3000 fo
r this seed):[] 
Underfull \hbox (badness 10000) in paragraph at lines 882--884
[]\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p
le, see
[2676]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 947--947
 []     \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code
=3), ...)[] 
[2677]
Underfull \hbox (badness 4872) in paragraph at lines 992--994
[]\T1/ptm/m/n/10 simply cor-re-sponds to the global max-i-mum, i.e., is
Underfull \hbox (badness 1342) in paragraph at lines 1006--1010
[]\T1/ptm/m/n/10 This, the de-fault, has been pro-posed by Mar-tin Maech-ler in
 2012,
[2678]
Underfull \hbox (badness 2503) in paragraph at lines 1092--1096
[]\T1/ptm/m/n/10 Per Broberg (2006). SAGx: Sta-tis-ti-cal Anal-y-sis of the Gen
eChip. R pack-age ver-
[2679]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1118--1118
 []        \T1/pcr/m/n/9 sapply(mets, function(M) maxSE(fk, sk, method = M, SE.
factor = SEf)))[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1135--1135
 []\T1/pcr/m/n/9 ## You can manually set it before running this :    doExtras <
- TRUE  # or  FALSE[] 
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Overfull \hbox (20.58041pt too wide) in paragraph at lines 1173--1173
 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap(<iid_rnorm_p=3>)  ==> k = 1  clust
er is optimal")[] 
Underfull \hbox (badness 4144) in paragraph at lines 1205--1209
[]\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1
/pcr/m/n/10 diss []\T1/ptm/m/n/10 nor a []\T1/pcr/m/n/10 data []\T1/ptm/m/n/10 
com-po-nent, e.g., for
[2681]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1281--1281
 []          \T1/pcr/m/n/10 col.clus = if(color) c(2, 4, 6, 3) else 5, cex = 1,
 cex.txt = cex,[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 1287--1287
 []             \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin
t variability."),[] 
[2682] [2683] [2684]
Underfull \hbox (badness 10000) in paragraph at lines 1474--1477
Underfull \hbox (badness 10000) in paragraph at lines 1488--1492
[][][]\T1/pcr/m/n/10 princomp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cmds
cale[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 daisy[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cov.mve[][][
][]\T1/ptm/m/n/10 ,
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1512--1512
 []\T1/pcr/m/n/9 clusplot(pamv, col.p = votes.clus, labels = 4)# color points a
nd label ellipses[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1522--1522
 []  \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i
dent. only points[] 
[2685]
Underfull \hbox (badness 5741) in paragraph at lines 1562--1565
[]\T1/pcr/m/n/10 coefHier() []\T1/ptm/m/n/10 di-rectly in-ter-faces to the un-d
er-ly-ing C code, and ``proves'' that \T1/ptm/m/it/10 only
[2686]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1631--1631
 []      \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa
rnType,[] 
[2687]
Underfull \hbox (badness 1552) in paragraph at lines 1680--1682
[]\T1/ptm/b/n/10 A\T1/ptm/m/n/10 symmetric bi-nary vari-able, aka []\T1/pcr/m/n
/10 "A" []\T1/ptm/m/n/10 in re-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , se
e
Underfull \hbox (badness 1629) in paragraph at lines 1694--1698
[]\T1/ptm/b/n/10 I\T1/ptm/m/n/10 nterval scaled -- the \T1/ptm/b/n/10 de-fault 
\T1/ptm/m/n/10 for all nu-meric
Underfull \hbox (badness 3746) in paragraph at lines 1694--1698
\T1/ptm/m/n/10 (incl []\T1/pcr/m/n/10 integer[]\T1/ptm/m/n/10 ) columns of []\T
1/pcr/m/n/10 x[]\T1/ptm/m/n/10 , aka []\T1/pcr/m/n/10 "I" []\T1/ptm/m/n/10 in r
e-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , see
[2688]
Underfull \hbox (badness 1540) in paragraph at lines 1769--1777
\T1/ptm/m/n/10 In other words, $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 is a weigh
ted mean of $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 with weights $\OML/cmm/m/it/1
0 w[]^^N[]$\T1/ptm/m/n/10 , where $\OML/cmm/m/it/10 w[]$[]\T1/pcr/m/n/10 =
[2689]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1856--1856
 []\T1/pcr/m/n/9 ## Example 2 in reference, extended  ---  different ways of "m
ixed" / "gower":[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1860--1860
 []\T1/pcr/m/n/9 summary(d0    <- daisy(flower))  # -> the first 3 {0,1} treate
d as *N*ominal[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 1861--1861
 []\T1/pcr/m/n/9 summary(dS123 <- daisy(flower,  type = list(symm = 1:3))) # fi
rst 3 treated as *S*ymmetric[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1862--1862
 []\T1/pcr/m/n/9 stopifnot(dS123 == d0) # i.e.,  *S*ymmetric <==> *N*ominal {fo
r 2-level factor}[] 
Overfull \hbox (106.98032pt too wide) in paragraph at lines 1866--1866
 []\T1/pcr/m/n/9 summary(dA123 <- daisy(flowerN)) # .. all 3 logicals treated *
A*symmetric binary (w/ warning)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1868--1868
 []\T1/pcr/m/n/9 summary(dA13 <- daisy(flower, type = list(asymm = c(1, 3), ord
ratio = 7)))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1876--1876
 []\T1/pcr/m/n/9 summary(dN <- daisy(Nflow)) # w/ warning: treated binary .. 1:
3 as interval[] 
Overfull \hbox (117.7803pt too wide) in paragraph at lines 1877--1877
 []\T1/pcr/m/n/9 ## Still, using Euclidean/Manhattan distance for {0-1} *is* id
entical to treating them as "N" :[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 1893--1893
 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st
and = FALSE, 
[2690] [2691] [2692] [2693] [2694]
Underfull \hbox (badness 10000) in paragraph at lines 2212--2215
Underfull \hbox (badness 3179) in paragraph at lines 2223--2229
[][][]\T1/pcr/m/n/10 predict.ellipsoid[][][] []\T1/ptm/m/n/10 which is also the
 [][][]\T1/pcr/m/n/10 predict[][][] []\T1/ptm/m/n/10 method for []\T1/pcr/m/n/1
0 ellipsoid []\T1/ptm/m/n/10 ob-jects.
[2695] [2696]
Underfull \hbox (badness 10000) in paragraph at lines 2380--2383
[][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en
ces; [][][]\T1/pcr/m/n/10 fanny.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 partition.object[][][][]\T1/ptm/m/n/10 ,
[2697]
Underfull \hbox (badness 1292) in paragraph at lines 2448--2451
[]\T1/ptm/m/n/10 named vec-tor with []\T1/pcr/m/n/10 iterations[]\T1/ptm/m/n/10
 , the num-ber of it-er-a-tions needed and
[2698]
Underfull \hbox (badness 6675) in paragraph at lines 2457--2459
[]\T1/ptm/m/n/10 list with sil-hou-ette in-for-ma-tion of the near-est crisp cl
us-ter-ing, see
Underfull \hbox (badness 10000) in paragraph at lines 2480--2483
[][][]\T1/pcr/m/n/10 fanny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.f
anny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dissimilarity.object[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 ,
[2699]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2555--2555
 []                           \T1/pcr/m/n/9 "4" = "red", "5" = "blue")[levels(f
lowerN$color)][] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 2556--2556
 []\T1/pcr/m/n/9 levels(flowerN$soil)  <- c("1" = "dry", "2" = "normal", "3" = 
"wet")[levels(flowerN$soil)][] 
[2700]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 2619--2619
 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES 
= FALSE, ...) 
[2701]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 2666--2666
 []  \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k
 <= k, table(cl.k) >= 2)[] 
[2702]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2771--2771
 []\T1/pcr/m/n/9 ## One place to see if/how error messages are *translated* (to
 \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 de\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 / \TS1/pcr/m/n/
9 '\T1/pcr/m/n/9 pl\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ):[] 
[2703]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 2850--2850
 []    \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5"
, "faster"),[] 
[2704] [2705] [2706]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3076--3076
 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro
und (1, 16):[] 
[2707] [2708]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3179--3179
 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co
l.axis = "red")[] 
[2709] [2710] [2711]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 3373--3373
 []           \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x
$ac, digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3374--3374
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2712]
Underfull \hbox (badness 10000) in paragraph at lines 3441--3444
[]\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m
/n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <-
[2713]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 3491--3491
 []           \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc,
 digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3492--3492
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2714] [2715] [2716]
Underfull \hbox (badness 10000) in paragraph at lines 3677--3680
[]\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1
/pcr/m/n/10 diss []\T1/ptm/m/n/10 com-po-nent as for [][][]\T1/pcr/m/n/10 pam[]
[][](*,
Underfull \hbox (badness 1448) in paragraph at lines 3677--3680
\T1/pcr/m/n/10 keep.diss=FALSE)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dist []\T1/p
tm/m/n/10 must be the dis-sim-i-lar-ity if a clus-plot is
[2717]
Underfull \hbox (badness 10000) in paragraph at lines 3740--3745
[][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 clusplot.partition[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 clusplot.de
fault[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 ,
[2718]
Underfull \hbox (badness 1748) in paragraph at lines 3802--3807
\T1/ptm/m/n/10 dis-patches to [][][]\T1/pcr/m/n/10 plot.hclust[][][](..)[]\T1/p
tm/m/n/10 . If more flex-i-ble plots are needed, con-sider []\T1/pcr/m/n/10 xx 
<-
Underfull \hbox (badness 6268) in paragraph at lines 3814--3817
[][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 agnes.o
bject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana[][][][]\T1/ptm/m/n/10 
, [][][]\T1/pcr/m/n/10 diana.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/1
0 hclust[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10
 , [][][]\T1/pcr/m/n/10 plot.agnes[][][][]\T1/ptm/m/n/10 ,
[2719]
Underfull \hbox (badness 10000) in paragraph at lines 3875--3877
[]\T1/ptm/m/n/10 Available as `\T1/pcr/m/n/10 pluton.dat\T1/ptm/m/n/10 ' from t
he archive of the Uni-ver-sity of Antwer-pen,
[2720] [2721]
Underfull \hbox (badness 10000) in paragraph at lines 3994--3997
[][][]\T1/pcr/m/n/10 summary.agnes[][][] []\T1/ptm/m/n/10 pro-duc-ing more out-
put; [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ag
nes.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/
n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 4025--4028
[][][]\T1/pcr/m/n/10 summary.clara[][][] []\T1/ptm/m/n/10 pro-duc-ing more out-
put; [][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cl
ara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/
n/10 ,
[2722]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 4078--4078
 []      \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right =
 TRUE, ...)[] 
Underfull \hbox (badness 2035) in paragraph at lines 4089--4091
[]\T1/ptm/m/n/10 a []\T1/pcr/m/n/10 dissimilarity []\T1/ptm/m/n/10 ob-ject or a
 []\T1/pcr/m/n/10 summary.dissimilarity []\T1/ptm/m/n/10 one for
[2723] [2724] [2725] [2726]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 4282--4282
 []     \T1/pcr/m/n/10 main = NULL, sub = NULL, xlab = expression("Silhouette w
idth "* s[i]),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 4284--4284
 []     \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat
 = TRUE, ...)[] 
[2727] [2728]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 4426--4426
 []\T1/pcr/m/n/9 plot(si, col = c("red", "green", "blue", "purple"))# with clus
ter-wise coloring[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4435--4435
 []   \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k),
 do.n.k=FALSE)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4437--4437
 []      \T1/pcr/m/n/9 outer = TRUE, font = par("font.main"), cex = par("cex.ma
in")); frame()[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 4440--4440
 []\T1/pcr/m/n/9 c6 <- c("tomato", "forest green", "dark blue", "purple2", "gol
denrod4", "gray20")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4442--4442
 []   \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k),
 do.n.k=FALSE,[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 4449--4449
 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro
wnames == indices[] 
[2729] [2730] [2731] [2732] [2733] [2734] [2735]
Underfull \hbox (badness 10000) in paragraph at lines 4820--4826
[]\T1/ptm/m/n/10 Our ver-sion of the []\T1/pcr/m/n/10 xclara []\T1/ptm/m/n/10 i
s slightly more rounded than the one from
Underfull \hbox (badness 10000) in paragraph at lines 4836--4838
[]\T1/ptm/m/n/10 Sample data set ac-com-pa-ny-ing the ref-er-ence be-low (file 
`\T1/pcr/m/n/10 xclara.dat\T1/ptm/m/n/10 ' in side
Overfull \hbox (52.98038pt too wide) in paragraph at lines 4849--4849
 []\T1/pcr/m/n/9 ## Visualization: Assuming groups are defined as {1:1000}, {10
01:2000}, {2001:3000} 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 4851--4851
 []\T1/pcr/m/n/9 p.ID <- c(78, 1411, 2535) ## PAM\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 
s medoid indices  == pam(xclara, 3)$id.med[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4861--4861
 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7  clear "outlier"s  or "wrong group" o
bservations:[] 
[2736]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4865--4865
 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? -
- Robust range:[] 
[2737]) (./codetools-pkg.tex [2738]
Chapter 21.
Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16
 []           \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch
 = FALSE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17
 []           \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = 
!all,[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 18--18
 []           \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress
Undefined,[] 
[2739]
Underfull \hbox (badness 10000) in paragraph at lines 65--70
[]\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage
Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply
[2740]
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 []\T1/pcr/m/n/10 makeConstantFolder(..., leaf, handler, call, exit, isLocal, f
oldable,[] 
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 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e
nterInternal,[] 
[2741] [2742] [2743]) (./foreign-pkg.tex [2744]
Chapter 22.
Underfull \hbox (badness 10000) in paragraph at lines 33--37
[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
Underfull \hbox (badness 10000) in paragraph at lines 33--37
\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\T1/p
cr/m/n/10 https : / / support .
Underfull \hbox (badness 10000) in paragraph at lines 33--37
\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
Overfull \hbox (74.28088pt too wide) in paragraph at lines 33--37
\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2745]
Underfull \hbox (badness 1231) in paragraph at lines 67--70
[]\T1/ptm/m/n/10 a char-ac-ter string with the name of the ARFF file to read fr
om, or a
[2746] [2747]
Underfull \hbox (badness 3601) in paragraph at lines 234--242
[]\T1/ptm/m/n/10 A data frame with at-tributes. These will in-clude []\T1/pcr/m
/n/10 "datalabel"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "time.stamp"[]\T1/ptm/m/n/
10 ,
[2748]
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 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates =
 FALSE, 
[2749] [2750] [2751]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 458--458
 []          \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t
o.data.frame,[] 
[2752]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 459--459
 []          \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen
d", "no"),[] 
Underfull \hbox (badness 2846) in paragraph at lines 502--511
[]\T1/ptm/m/n/10 character: what to do with du-pli-cated value la-bels for dif-
fer-ent lev-
Underfull \hbox (badness 3746) in paragraph at lines 502--511
\T1/ptm/m/n/10 els. For []\T1/pcr/m/n/10 "append" []\T1/ptm/m/n/10 (the de-faul
t), the first orig-i-nal value la-bel is
Underfull \hbox (badness 2269) in paragraph at lines 502--511
\T1/ptm/m/n/10 kept while fur-ther du-pli-cated la-bels are re-named to []\T1/p
cr/m/n/10 paste0(label,
Underfull \hbox (badness 10000) in paragraph at lines 512--515
[]\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with
 du-
Underfull \hbox (badness 10000) in paragraph at lines 512--515
\T1/ptm/m/n/10 pli-cated value la-bels in SPSS (de-fault []\T1/pcr/m/n/10 "_dup
licated_"[]\T1/ptm/m/n/10 ) if
[2753]
Underfull \hbox (badness 10000) in paragraph at lines 546--554
[]\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / 
en-[]us / windows / win32 / intl /
Underfull \hbox (badness 7613) in paragraph at lines 564--570
[]\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute
[2754]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 619--619
 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg
ument settings.[] 
Overfull \hbox (112.38031pt too wide) in paragraph at lines 620--620
 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to 
R factor labels) are uncomplete,[] 
[2755]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 653--653
 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ
ate variables[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 657--657
 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt
h=w), "\n"))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 664--664
 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, 
collapse="")[] 
[2756] [2757]
Underfull \hbox (badness 10000) in paragraph at lines 808--809
Overfull \hbox (4.38043pt too wide) in paragraph at lines 818--818
 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f
oreign")[1])[] 
[2758]
Underfull \hbox (badness 10000) in paragraph at lines 865--869
[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
Underfull \hbox (badness 10000) in paragraph at lines 865--869
\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p
cr/m/n/10 https : / / support .
Underfull \hbox (badness 10000) in paragraph at lines 865--869
\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
Overfull \hbox (74.28088pt too wide) in paragraph at lines 865--869
\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2759]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 896--896
 []  \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G
lobalEnv) 
[2760]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 960--960
 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute
(x))) 
[2761] [2762]
Underfull \hbox (badness 10000) in paragraph at lines 1072--1073
[][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase 
/ format / data _ types .
Overfull \hbox (24.78088pt too wide) in paragraph at lines 1108--1108
 []          \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", 
"codes"))[] 
[2763] [2764]
Underfull \hbox (badness 10000) in paragraph at lines 1265--1271
[]\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig
n:::writeForeignStata[]\T1/ptm/m/n/10 ,
[2765]
Underfull \hbox (badness 2088) in paragraph at lines 1291--1294
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid
e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET
[2766]) (./lattice-pkg.tex
Chapter 23.
[2767]
Underfull \hbox (badness 2073) in paragraph at lines 114--118
\T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [
][]$\T1/pcr/m/n/10 http : / / web . archive . org /
Underfull \hbox (badness 10000) in paragraph at lines 114--118
\T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / 
ms / departments / sia /
[2768] [2769]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 288--288
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 292--292
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.xyplot"),[] 
[2770]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 303--303
 []        \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul
t.dotplot"),[] 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 313--313
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.barchart"),[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 324--324
 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.stripplot"),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 348--348
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2771]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 352--352
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.bwplot"),[] 
[2772] [2773] [2774]
Underfull \hbox (badness 1221) in paragraph at lines 655--658
[]\T1/ptm/m/n/10 A log-i-cal, or a list con-tain-ing com-po-nents to be used as
 ar-gu-ments to
[2775] [2776] [2777] [2778]
Underfull \hbox (badness 2005) in paragraph at lines 988--1000
[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the un-used lev-els of 
fac-tors will be
Underfull \hbox (badness 1199) in paragraph at lines 988--1000
\T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a 
use-ful lay-out.
[2779] [2780]
Underfull \hbox (badness 1661) in paragraph at lines 1101--1107
[]\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 sho
uld be num-bers be-tween 0 and 1, giv-ing co-or-di-nates
[2781]
Underfull \hbox (badness 1097) in paragraph at lines 1227--1229
[]\T1/ptm/m/n/10 Logical flag, whether leg-end should have a
Underfull \hbox (badness 1917) in paragraph at lines 1241--1242
[]\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to
[2782] [2783] [2784]
Underfull \hbox (badness 1540) in paragraph at lines 1476--1482
[]\T1/ptm/m/n/10 A list con-tain-ing pos-si-ble ar-gu-ments to [][][]\T1/pcr/m/
n/10 plot.trellis[][][][]\T1/ptm/m/n/10 ,
[2785]
Underfull \hbox (badness 10000) in paragraph at lines 1563--1580
[][][]\T1/pcr/m/n/10 panel.dotplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 panel.stripplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.superpose[]
[][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.loess[][][][]\T1/ptm/m/n/10 ,
[2786]
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Overfull \hbox (36.7804pt too wide) in paragraph at lines 1651--1651
 []                  \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar
dSprays$rowpos))),[] 
[2788]
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[]\T1/ptm/m/n/10 additional ar-gu-ments passed to [][][]\T1/pcr/m/n/10 xyplot[]
[][][]\T1/ptm/m/n/10 , which may pass them on to
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[]\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p
assed to
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[]\T1/ptm/m/n/10 style set-tings be-yond the stan-dard []\T1/pcr/m/n/10 col[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1
/ptm/m/n/10 , etc; see
[2789]
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[]\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix
 An-drews
[2790] [2791] [2792]
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 []            \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto
.key,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2058--2058
 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl
ot"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2793]
Underfull \hbox (badness 10000) in paragraph at lines 2137--2140
[]\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 breaks []\T1/ptm/m/n/10 is un-spec-i-fie
d, the value of
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[]\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs
t checked. If
[2794] [2795] [2796]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 2342--2342
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 2346--2346
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.qqmath"),[] 
[2797] [2798] [2799] [2800] [2801]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 2702--2702
 []          \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev
elplot.raster")[] 
[2802]
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 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl
ot"),[] 
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Underfull \hbox (badness 2913) in paragraph at lines 2813--2818
[]\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/
pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix.
Underfull \hbox (badness 3058) in paragraph at lines 2813--2818
[]\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values
 []\T1/ptm/m/n/10 must have the same lengths as
[2804] [2805]
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[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the col-orkey should be
Underfull \hbox (badness 7576) in paragraph at lines 2941--2945
\T1/ptm/m/n/10 ren-dered as a raster im-age us-ing [][][]\T1/pcr/m/n/10 grid.ra
ster[][][][]\T1/ptm/m/n/10 . See also
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[]\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] 
[]\T1/ptm/m/n/10 when
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[]\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gr
oups[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1609) in paragraph at lines 2997--3003
[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether raster rep-re-sen-ta-ti
ons should be used,
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\T1/ptm/m/n/10 both for the false color im-age and the color key (if present). 
Ef-
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\T1/ptm/m/n/10 fec-tively, set-ting this to []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n
/10 changes the de-fault panel func-tion from
Underfull \hbox (badness 2486) in paragraph at lines 3021--3025
[]\T1/ptm/m/n/10 Other use-ful ar-gu-ments are men-tioned in the help page for 
the de-fault panel func-tion
[2806] [2807]
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 []      \T1/pcr/m/n/10 xlim = if (is.factor(x)) levels(x) else range(x, finite
 = TRUE),[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3127--3127
 []      \T1/pcr/m/n/10 ylim = if (is.factor(y)) levels(y) else range(y, finite
 = TRUE),[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3128--3128
 []      \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite
 = TRUE),[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3139--3139
 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
cloud"),[] 
[2808]
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 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.wireframe"),[] 
[2809]
Underfull \hbox (badness 2913) in paragraph at lines 3219--3224
[]\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/
pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix.
Underfull \hbox (badness 3058) in paragraph at lines 3219--3224
[]\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values
 []\T1/ptm/m/n/10 must have the same lengths as
Underfull \hbox (badness 2418) in paragraph at lines 3225--3225
[]\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepan
el[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 
groups[]\T1/ptm/m/n/10 ,
[2810] [2811] [2812]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.parallel}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.3506 \aliasA{parallel}{B\_08\_splom}{parallel}
                                                 [2813]
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 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
splom"),[] 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 3571--3571
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.parallel"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2814]
[2815] [2816] [2817] [2818]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3906--3906
 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt(
var(x))) 
[2819] [2820]
Underfull \hbox (badness 2277) in paragraph at lines 3992--3996
[]\T1/ptm/m/n/10 A pos-si-ble use of this ar-gu-ment is to change the de-fault 
set-tings by
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\T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa
ded) set to
[2821]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 4089--4089
 []               \T1/pcr/m/n/10 symbol = palette.colors(palette = "Okabe-Ito")
[c(6, 2, 4, 7, 3, 5, 8)],[] 
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 []               \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re
v = TRUE),[] 
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 []             \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = "
black",[] 
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 []             \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra
y70", 7),[] 
[2822] [2823]
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 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict 
= FALSE) 
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[]\T1/ptm/m/n/10 A char-ac-ter string giv-ing the name of a com-po-nent. If un-
spec-i-fied in
[2824]
Underfull \hbox (badness 3219) in paragraph at lines 4278--4280
[]\T1/ptm/m/n/10 A log-i-cal flag, in-di-cat-ing whether a warn-ing should be i
s-sued when
Underfull \hbox (badness 1728) in paragraph at lines 4295--4299
[]\T1/pcr/m/n/10 theme[]\T1/ptm/m/n/10 ). These are used to mod-ify the cur-ren
t set-tings (ob-tained by
[2825]
Underfull \hbox (badness 5161) in paragraph at lines 4360--4364
[]\T1/ptm/m/n/10 The ac-tual list of the com-po-nents in []\T1/pcr/m/n/10 trell
is.settings []\T1/ptm/m/n/10 has not been fi-nal-ized,
Underfull \hbox (badness 4913) in paragraph at lines 4360--4364
\T1/ptm/m/n/10 so I'm not at-tempt-ing to list them here. The cur-rent value ca
n be ob-tained by
[2826]
Underfull \hbox (badness 1067) in paragraph at lines 4478--4488
[]\T1/ptm/m/n/10 A color spec-i-fi-ca-tion. []\T1/pcr/m/n/10 col []\T1/ptm/m/n/
10 is used for com-po-nents []\T1/pcr/m/n/10 "plot.symbol"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "plot.line"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "plot.polygon"[
]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1735) in paragraph at lines 4478--4488
[]\T1/pcr/m/n/10 "superpose.line"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "super
pose.polygon"[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 col.points
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[]\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , but is used 
only for []\T1/pcr/m/n/10 "plot.symbol" []\T1/ptm/m/n/10 and
Underfull \hbox (badness 5231) in paragraph at lines 4478--4488
[]\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 . Sim-i-larly, []\T1/pcr/m/
n/10 col.line []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col []\T1/ptm/m/n/10
 for
[2827]
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[]\T1/ptm/m/n/10 fill color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 pl
ot.symbol[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 plot.polygon[]\T1/ptm/m/n/10 ,
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[]\T1/ptm/m/n/10 border color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 
plot.polygon []\T1/ptm/m/n/10 and
[2828]
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[]\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 aspect[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 between[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 grid[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 skip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 ,
[2829] [2830] [2831] [2832]
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 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab
 = "Height")[] 
[2833] [2834]
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[]\T1/pcr/m/n/10 main[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 page[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 par.strip.text[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 skip
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yscale.co
mponents[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 axis[]\T1/ptm/m/n/10 , []\T1/pcr/m/
n/10 par.settings[]\T1/ptm/m/n/10 ,
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[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 trellis[]\T1/ptm/m/n/10 ,
 by de-fault plot-ted by []\T1/pcr/m/n/10 print.trellis[]\T1/ptm/m/n/10 .
[2836] [2837]
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[]\T1/pcr/m/n/10 plot.shingle []\T1/ptm/m/n/10 dis-plays the ranges of shin-gle
s via rect-an-gles. []\T1/pcr/m/n/10 print.shingle []\T1/ptm/m/n/10 and
[2838] [2839] [2840] [2841] [2842]
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[][][]\T1/pcr/m/n/10 Lattice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 draw.
key[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 trellis.par.get[][][][]\T1/ptm
/m/n/10 , and [][][]\T1/pcr/m/n/10 xyplot[][][][]\T1/ptm/m/n/10 , specif-i-call
y the en-try for
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 []              \T1/pcr/m/n/10 bg = trellis.par.get("strip.background")$col[wh
ich.given],[] 
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 []              \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which
.given],[] 
[2843]
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[]\T1/ptm/m/n/10 logical, spec-i-fy-ing whether the la-bels etc should be hor-i
-zon-tal.
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[]\T1/pcr/m/n/10 horizontal=FALSE []\T1/ptm/m/n/10 is use-ful for strips on the
 left of pan-els us-ing
[2844]
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[]\T1/pcr/m/n/10 strip.default []\T1/ptm/m/n/10 is called for its side-effect, 
which is to draw a strip ap-pro-pri-ate for
[2845] [2846]
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 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la
bels,[] 
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 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose
"), ...)[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 5876--5876
 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos
e"), ...)[] 
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 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location"
, "toplevel",[] 
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 []                        \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig
ht", "page"),[] 
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 []               \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in
side"),[] 
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 []                 \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi
ch.given",[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5891--5891
 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 5892--5892
 []                 \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi
ch.panel",[] 
[2847]
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 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
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 []                 \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co
lumn",[] 
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[]\T1/ptm/m/n/10 variables defin-ing the con-tents of the panel. In the case of
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[]\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point.
 De-faults to
[2848]
Underfull \hbox (badness 2538) in paragraph at lines 6045--6049
\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 trellis.focus[]\T1/ptm/m/n/10 , the de-faul
t is []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 in in-ter-ac-tive mode, and
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 panel.identify.qqmath[]\T1/ptm/m/n/10 , e
x-tra pa-ram-e-ters are passed on to
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[]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 trellis.switchFocus[]\T1/ptm/m/n/10 , the
se are used (in com-bi-na-tion with
[2849] [2850]
Underfull \hbox (badness 10000) in paragraph at lines 6209--6213
[][][]\T1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Latt
ice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.trellis[][][][]\T1/ptm/m
/n/10 , [][][]\T1/pcr/m/n/10 trellis.currentLayout[][][][]\T1/ptm/m/n/10 ,
[2851]
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[2853]
Underfull \hbox (badness 4242) in paragraph at lines 6356--6361
[]\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li
s pa-ram-e-
[2854] [2855]
Underfull \hbox (badness 3601) in paragraph at lines 6472--6477
[]\T1/ptm/m/n/10 Creates Box and Whisker plot of []\T1/pcr/m/n/10 x []\T1/ptm/m
/n/10 for ev-ery level of []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 (or the other way
 round
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\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 horizontal=FALSE[]\T1/ptm/m/n/10 ). By de-fa
ult, the ac-tual box-plot statis-tics are cal-cu-lated us-ing
[2856]
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 []             \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co
lors")$palette,[] 
[2857] [2858] [2859]
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[]\T1/ptm/m/n/10 All three num-bers should be be-tween 0 and 1. The
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[]\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i
n
[2860]
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 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Inferno"),[] 
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 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Dark Mint"),[] 
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 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Harmonic"),[] 
[2861] [2862] [2863] [2864] [2865]
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[]\T1/pcr/m/n/10 panel.levelplot.raster []\T1/ptm/m/n/10 is an al-ter-na-tive p
anel func-tion that uses the raster draw-
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\T1/ptm/m/n/10 can only ren-der data on an eq-ui-s-paced grid), but can be more
 ef-fi-cient. When us-ing
[2866] [2867]
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 []                 \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = 
NULL,[] 
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[]\T1/ptm/m/n/10 The panel func-tion used for the di-ag-o-nals. See ar-gu-ments
 to
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[]\T1/pcr/m/n/10 diag.panel.splom []\T1/ptm/m/n/10 to know what ar-gu-ments thi
s func-tion is passed
[2868] [2869]
Underfull \hbox (badness 10000) in paragraph at lines 7435--7438
\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 diag.panel []\T1/ptm/m/n/10 from []\T1/pcr/
m/n/10 panel.pairs[]\T1/ptm/m/n/10 . Cur-rently ig-nored by
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 []              \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow(
11, start=.12, end=.5)[i+j-1])[] 
[2870] [2871]
Underfull \hbox (badness 2012) in paragraph at lines 7601--7604
[]\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu
-ally passed on to
[2872]
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 []                  \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta
ils.n = 50))[] 
[2873] [2874]
Underfull \hbox (badness 1939) in paragraph at lines 7836--7844
[]\T1/pcr/m/n/10 "lm" []\T1/ptm/m/n/10 adds a lin-ear re-gres-sion line (same a
s [][][]\T1/pcr/m/n/10 panel.lmline[][][][]\T1/ptm/m/n/10 , ex-cept
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\T1/ptm/m/n/10 for de-fault graph-i-cal pa-ram-e-ters). []\T1/pcr/m/n/10 "loess
" []\T1/ptm/m/n/10 adds a loess fit (same as
[2875]
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[]\T1/ptm/m/n/10 Most gen-er-ally, []\T1/pcr/m/n/10 grid []\T1/ptm/m/n/10 can b
e a list of ar-gu-ments to be sup-plied to
[2876]
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 []       \T1/pcr/m/n/9 ylab = list(c("horizontal=TRUE", "horizontal=FALSE"), y
 = c(1/6, 4/6)),[] 
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 []       \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d
raw = FALSE),[] 
[2877]
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 []        \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam
e.type)[] 
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 []        \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ide
ntifier, name.type)[] 
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[]\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 alpha[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1/ptm/m/n/10 , 
[]\T1/pcr/m/n/10 fill[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 , 
[]\T1/pcr/m/n/10 cex[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lineheight[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 font[]\T1/ptm/m/n/10 ,
[2879]
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 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.rect, col = 4, alpha = 0.5, wid
th = 0.1, height = 0.1)[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.polygon, col = 4, alpha = 0.5, 
rule = "evenodd")[] 
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 []\T1/pcr/m/n/9 ## Example adapted from https://journal.r-project.org/articles
/RJ-2012-017/[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polygon,  rule = "none",
 col = "grey")[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "windin
g", col = "grey")[] 
[2880]
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "evenod
d", col = "grey")[] 
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 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden
tifier = "grid")[] 
[2881]
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[]\T1/ptm/m/n/10 A log-i-cal flag de-ter-min-ing whether the de-fault graph-i-c
al pa-ram-e-ters for
[2882] [2883]
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 []           \T1/pcr/m/n/9 panel.superpose(x, y, ..., panel.groups = panel.ave
rage, grid = FALSE,[] 
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 []                                \T1/pcr/m/n/9 args = list(mean = mean(x), sd
 = sd(x)), ...)[] 
[2884] [2885] [2886] [2887] [2888] [2889]
Underfull \hbox (badness 10000) in paragraph at lines 8878--8881
[]\T1/ptm/m/n/10 Extra ar-gu-ments. Passed down to []\T1/pcr/m/n/10 panel.super
pose
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[]\T1/ptm/m/n/10 from []\T1/pcr/m/n/10 panel.superpose.2[]\T1/ptm/m/n/10 , and 
to []\T1/pcr/m/n/10 panel.groups []\T1/ptm/m/n/10 from
[2890] [2891]
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 []\T1/pcr/m/n/10 prepanel.default.bwplot(x, y, horizontal, nlevels, origin, st
ack, ...)[] 
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 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin
t, ...)[] 
[2892]
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 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr
ipts, ...)[] 
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[]\T1/ptm/m/n/10 details of his-togram cal-cu-la-tions. []\T1/pcr/m/n/10 type [
]\T1/ptm/m/n/10 has a dif-fer-ent mean-ing in
[2893]
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[]\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti
es. If used with
[2894] [2895]
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[]\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr
ibed in
[2896]
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 []                \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b
ottom$labels$labels)[] 
[2897] [2898]
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 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su
nspot.year)),[] 
[2899]
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\T1/pcr/m/n/10 condition []\T1/ptm/m/n/10 for 2-D, and []\T1/pcr/m/n/10 left, r
ight.x, right.y, left.name, right.x.name,
[2900] [2901] [2902] [2903] [2904] [2905] [2906]
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[]\T1/ptm/m/n/10 Factor with lev-els []\T1/pcr/m/n/10 "Svansota"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "No. 462"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Manchuria"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 475"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "Velvet"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Peatland"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "Glabron"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 4
57"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Wisconsin No. 38"[]\T1/ptm/m/n/10 ,
[2907] [2908] [2909]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.melanoma}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10249 \aliasA{melanoma}{H\_melanoma}{melanoma}
                                                 [2910] [2911] [2912]
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\T1/pcr/m/n/10 diseases[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Diabetes[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 Flu and pneumonia[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 He
art disease[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Lower
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 []        \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list(
columns = 2),[] 
[2913] [2914]) (./mgcv-pkg.tex
Chapter 24.
[2915] [2916]
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 []\T1/pcr/m/n/10 bam(formula,family=gaussian(),data=list(),weights=NULL,subset
=NULL, 
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 []    \T1/pcr/m/n/10 paraPen=NULL,chunk.size=10000,rho=0,AR.start=NULL,discret
e=FALSE,[] 
[2917]
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 []    \T1/pcr/m/n/10 coef=NULL,drop.unused.levels=TRUE,G=NULL,fit=TRUE,drop.in
tercept=NULL,[] 
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
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\T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known 
scale.
[2918] [2919] [2920] [2921]
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[][][]\T1/pcr/m/n/10 mgcv.parallel[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 ,
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[][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict.
gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10
 ,
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[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g
am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm
/m/n/10 ,
[2922]
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 []\T1/pcr/m/n/9 system.time(b2 <- bam(y ~ s(x0,bs=bs,k=k)+s(x1,bs=bs,k=k)+s(x2
,bs=bs,k=k)+[] 
[2923] [2924] [2925]
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[]\T1/ptm/m/n/10 The link func-tion: one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cloglog" 
[]\T1/ptm/m/n/10 and
[2926] [2927]
Underfull \hbox (badness 1406) in paragraph at lines 704--705
[]\T1/ptm/m/n/10 The MKL BLAS is mut-lithreaded by de-fault. Un-der linux set-t
ing en-vi-ron-ment vari-able
[2928] [2929]
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[]\T1/ptm/m/n/10 Choosing the ba-sis di-men-sion, and check-ing the choice, whe
n us-ing pe-nal-ized re-gres-sion
[2930]
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[]\T1/ptm/m/n/10 Wood, S.N. (2017) Gen-er-al-ized Ad-di-tive Mod-els: An In-tro
-duc-tion with R (2nd edi-tion).
[2931]
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[2933] [2934] [2935] [2936] [2937] [2938] [2939]
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 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h + 2*b$family$data$
q^.5),col=2)[] 
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 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h - 2*b$family$data$
q^.5),col=2)[] 
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 []    \T1/pcr/m/n/9 plot(b$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor
e residuals",[] 
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 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor
+rx+obstruct[] 
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 []\T1/pcr/m/n/9 if (i==1) plot(bs$family$data$tr[ind],exp(-bs$family$data$h[in
d]),type="l",[] 
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 []      \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind])
,lwd=2,col=i)[] 
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 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights=
d,data=surv)[] 
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[2942]
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 []  \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid),
 initial = 0,[] 
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 []    \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][
nrow(um)] <- 1[] 
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 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter
polate to te[] 
[2944] [2945] [2946] [2947] [2948] [2949] [2950]
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 []\T1/pcr/m/n/9 bd <- bam(y~s(x0)+ s(x1) + s(x1,fac,bs="sz",k=5)+s(x2,k=20),di
screte=TRUE)[] 
[2951] [2952] [2953] [2954]
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 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str
ict=FALSE) 
[2955] [2956] [2957] [2958] [2959] [2960]
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 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset
=NULL,[] 
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[]\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n
/10 formula.gam[][][] []\T1/ptm/m/n/10 and also
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[2961]
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\T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known 
scale.
[2962] [2963] [2964]
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\T1/ptm/m/n/10 eral lin-ear func-tion-als of smooths, via the sum-ma-tion con-v
en-tion mech-a-nism de-scribed in
[2965] [2966]
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[][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
gamObject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 ,
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[][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict.
gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10
 ,
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[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g
am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm
/m/n/10 ,
[2967]
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[2970] [2971]
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 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1
e-07, 
[2972]
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 []            \T1/pcr/m/n/10 maxit = 200,mgcv.tol=1e-7,mgcv.half=15, trace = F
ALSE,[] 
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 []         \T1/pcr/m/n/10 mustart = NULL, offset = rep(0, nobs), U1 = diag(nco
l(x)),[] 
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 []         \T1/pcr/m/n/10 printWarn=TRUE,scoreType="REML",null.coef=rep(0,ncol
(x)),[] 
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 []         \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU
LL,...)[] 
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[]\T1/ptm/m/n/10 Random ef-fects can be added to []\T1/pcr/m/n/10 gam []\T1/ptm
/m/n/10 mod-els us-ing []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms (
see
[2986] [2987]
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 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat
,method="ML")[] 
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[]\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix
ed penalty, if
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 []  \T1/pcr/m/n/9 mod <- gam(y~s(a,bs="re")+s(b,bs="re")+s(a,b,bs="re")+s(x0,i
d=1)+s(x1,id=1)+[] 
[2998] [2999] [3000]
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 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, 
d1b = 0, 
[3001] [3002]
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[3003]
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[]\T1/ptm/m/n/10 In the event of []\T1/pcr/m/n/10 lme []\T1/ptm/m/n/10 con-ver-
gence fail-ures, con-sider mod-i-fy-ing
[3004] [3005]
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[][][]\T1/pcr/m/n/10 magic[][][] []\T1/ptm/m/n/10 for an al-ter-na-tive for cor
-re-lated data, [][][]\T1/pcr/m/n/10 te[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gam[][][][]\T1/ptm
/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1418) in paragraph at lines 5270--5276
[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 n
egbin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 vis.gam[][][][]\T1/ptm/m/n/1
0 ,[][][]\T1/pcr/m/n/10 pdTens[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gamm4 [
]\T1/ptm/m/n/10 ( [][]$\T1/pcr/m/n/10 https : / / cran . r-[]project .
[3006]
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[3008] [3009] [3010]
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[]\T1/ptm/m/n/10 If `outer' it-er-a-tion has been used to fit the model (see []
[][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 ar-gu-ment
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[]\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic-
tion, used by
[3011] [3012] [3013] [3014] [3015] [3016] [3017] [3018] [3019]
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 []\T1/pcr/m/n/10 ginla(G,A=NULL,nk=16,nb=100,J=1,interactive=FALSE,integ=0,app
rox=0) 
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[]\T1/ptm/m/n/10 A pre-fit gam ob-ject, as pro-duced by []\T1/pcr/m/n/10 gam(..
.,fit=FALSE) []\T1/ptm/m/n/10 or
[3020] [3021]
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 []  \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d
ata. A simple[] 
[3022]
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 []      \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j]
,lty=lty[j])[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6233--6233
 []  \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo
r comparison[] 
[3023] [3024] [3025]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6355--6355
 []       \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r
norm(100)*.4[] 
[3026] [3027] [3028] [3029] [3030]
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 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n
a.action, 
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 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona
lize=FALSE)[] 
Underfull \hbox (badness 1142) in paragraph at lines 6715--6719
\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[3031] [3032] [3033] [3034] [3035] [3036] [3037]
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 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999,
all.derivs=FALSE) 
[3038] [3039] [3040]
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[3043] [3044]
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 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want
 to rule the world.",[] 
[3045]
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 []      \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y),
nthreads=1)[] 
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[3053] [3054]
Underfull \hbox (badness 1242) in paragraph at lines 8046--8047
[]\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra
nts EP/K005251/1 and
[3055] [3056]
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 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt
ion with bam...[] 
[3057]
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 []\T1/pcr/m/n/9 for (sim in c(1,7)) { ## cycle over uncorrelated and correlate
d covariates[] 
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 []    \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]]
,na.rm=TRUE)[] 
[3058] [3059] [3060] [3061] [3062] [3063] [3064] [3065] [3066] [3067] [3068]
[3069] [3070] [3071] [3072] [3073] [3074] [3075] [3076] [3077] [3078]
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[3080]
Underfull \hbox (badness 10000) in paragraph at lines 9533--9536
[]\T1/ptm/m/n/10 The fol-low-ing func-tions are pro-vided: []\T1/pcr/m/n/10 Dim
.pdIndot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdIdnot[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 9533--9536
[]\T1/pcr/m/n/10 corMatrix.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 logDet.pd
Idnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdConstruct.pdIdnot[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3118) in paragraph at lines 9533--9536
[]\T1/pcr/m/n/10 pdFactor.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdMatrix.p
dIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 solve.pdIdnot[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 summary.pdIdnot[]\T1/ptm/m/n/10 .
[3081]
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[]\T1/ptm/m/n/10 These func-tions ([]\T1/pcr/m/n/10 pdTens[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 pdConstruct.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdFactor.p
dTens[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3108) in paragraph at lines 9589--9592
[]\T1/pcr/m/n/10 pdMatrix.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdTens
 []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 summary.pdTens[]\T1/ptm/m/n/10 ) would n
ot nor-mally be
[3082] [3083] [3084]
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 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s
cale=-1,[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 9813--9813
 []         \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi
ds=FALSE,[] 
[3085] [3086] [3087]
Underfull \hbox (badness 1629) in paragraph at lines 9969--9974
[]\T1/ptm/m/n/10 just won't let you do it. In this case, the quick-est op-tion 
is some-times to clone the
[3088] [3089] [3090] [3091]
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 []        \T1/pcr/m/n/10 na.action=na.pass,cluster=NULL,discrete=TRUE,n.thread
s=1,gc.level=0,...)[] 
Underfull \hbox (badness 1062) in paragraph at lines 10218--10222
[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 type=="terms" []\T1/ptm/m/n/10 or []\T1/pc
r/m/n/10 type="iterms" []\T1/ptm/m/n/10 then terms (smooth or para-
[3092] [3093]
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 []        \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL
L,...)[] 
[3094] [3095] [3096]
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 []\T1/pcr/m/n/9 x1 <- seq(.2,.8,length=m1);x2 <- seq(.2,.8,length=m2) ## margi
nal grid points[] 
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 []\T1/pcr/m/n/9 df <- data.frame(x0=rep(.5,n),x1=rep(x1,m2),x2=rep(x2,each=m1)
,x3=rep(0,n))[] 
[3097]
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 []  \T1/pcr/m/n/9 Xi[,(i-1)*9+1:9+1] <- Xp[,(i-1)*9+1:9+1] ## Xi%*%coef(b) = s
mooth deriv i[] 
[3099]
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[]\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a
tes at which
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\T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are 
as for
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[]\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f
i-ca-tion ob-jects of class
[3100]
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[]\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a
tes at which
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\T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are 
as for
[3101]
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[]\T1/ptm/m/n/10 The smooth ob-ject will be largely what is re-turned from
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[][][]\T1/pcr/m/n/10 smooth.construct.so.smooth.spec[][][][]\T1/ptm/m/n/10 , al
-though el-e-ments []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 S [
]\T1/ptm/m/n/10 are not needed,
[3102] [3103] [3104]
Underfull \hbox (badness 1253) in paragraph at lines 10959--10961
[]\T1/ptm/m/n/10 Note that the op-ti-mized smooth-ing pa-ram-e-ter se-lec-tion 
cri-te-rion re-ported is one of GCV,
[3105] [3106] [3107] [3108] [3109]
Underfull \hbox (badness 1946) in paragraph at lines 11212--11219
[]\T1/ptm/m/n/10 The sec-ond method rep-re-sents the con-ven-tional ran-dom ef-
fects in a GAM in the same
Underfull \hbox (badness 2221) in paragraph at lines 11212--11219
\T1/ptm/m/n/10 way that the smooths are rep-re-sented --- as pe-nal-ized re-gre
s-sion terms. This method
Underfull \hbox (badness 2042) in paragraph at lines 11212--11219
\T1/ptm/m/n/10 can be used with [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10
 by mak-ing use of []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms in a 
model: see
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[]\T1/ptm/m/n/10 Alternatively, but less straight-for-wardly, the []\T1/pcr/m/n
/10 paraPen []\T1/ptm/m/n/10 ar-gu-ment to [][][]\T1/pcr/m/n/10 gam[][][] []\T1
/ptm/m/n/10 can be used:
Underfull \hbox (badness 5862) in paragraph at lines 11220--11223
\T1/ptm/m/n/10 see [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 . If s
mooth-ing pa-ram-e-ter es-ti-ma-tion is by ML or REML (e.g.
[3110]
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 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat
,method="ML")[] 
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 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv
olving them)[] 
[3111]
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[]\T1/ptm/m/n/10 the type of resid-u-als wanted. Usu-ally one of []\T1/pcr/m/n/
10 "deviance"[]\T1/ptm/m/n/10 ,
[3112] [3113] [3114] [3115] [3116]
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 []\T1/pcr/m/n/10 s(..., k=-1,fx=FALSE,bs="tp",m=NA,by=NA,xt=NULL,id=NULL,sp=NU
LL,pc=NULL) 
[3117] [3118] [3119] [3120] [3121] [3122]
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 []  \T1/pcr/m/n/9 true <- mu + (del * sigma) * sinh((1/del) * asinh(qnorm(qq))
 + (eps/del))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12016--12016
 []\T1/pcr/m/n/9 b <- gam(list(accel~s(times, k=20, bs = "ad"), ~s(times, k = 1
0), ~1, ~1),[] 
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[3124]
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[]\T1/ptm/m/n/10 INTERNAL rou-tine to ap-ply ini-tial Sl re-parameterization to
 model ma-trix X, or, if
Overfull \hbox (36.78088pt too wide) in paragraph at lines 12127--12127
 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, 
cov = TRUE,[] 
[3125]
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[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p
cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re-
Underfull \hbox (badness 10000) in paragraph at lines 12184--12188
[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p
cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re-
[3126] [3127] [3128]
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 [] \T1/pcr/m/n/9 range(er$values-um$values[ind]);range(abs(er$vectors)-abs(um$
vectors[,ind]))[] 
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[]\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f
i-ca-tion ob-jects of class
[3129]
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\T1/ptm/m/n/10 The last en-try will be the []\T1/pcr/m/n/10 by []\T1/ptm/m/n/10
 vari-able, if []\T1/pcr/m/n/10 object$by []\T1/ptm/m/n/10 is not []\T1/pcr/m/n
/10 "NA"[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 1502) in paragraph at lines 12428--12440
[]\T1/pcr/m/n/10 cs.smooth.spec []\T1/ptm/m/n/10 (cu-bic re-gres-sion splines w
ith shrinkage-to-zero); []\T1/pcr/m/n/10 cc.smooth.spec
[3130]
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[]\T1/ptm/m/n/10 method is used if there is no more spe-cific method avail-able
. Plot meth-ods can be
Underfull \hbox (badness 2970) in paragraph at lines 12445--12449
\T1/ptm/m/n/10 added for spe-cific smooth classes, see source code for []\T1/pc
r/m/n/10 mgcv:::plot.sos.smooth[]\T1/ptm/m/n/10 ,
[3131] [3132] [3133]
Underfull \hbox (badness 6876) in paragraph at lines 12640--12646
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use adap-tive smooths of on
e or two vari-ables, spec-i-fied via terms like
[3134]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3135] [3136]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3137]
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 []  \T1/pcr/m/n/9 b <- gam(y~s(x0,bs=bs,m=c(4,2))+s(x1,bs=bs)+s(x2,k=15,bs=bs,
m=c(4,3,0))+[] 
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 []  \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5,
1.5) (black)[] 
[3138]
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 []  \T1/pcr/m/n/9 ## penalty defined on (-.5,1.5) gives plausible predictions 
and intervals[] 
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 []  \T1/pcr/m/n/9 ## penalty defined on whole real line gives constant width i
ntervals away[] 
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 []  \T1/pcr/m/n/9 ## penalty defined only over the data interval (0,1) gives w
ild and wide[] 
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 []  \T1/pcr/m/n/9 ## extrapolation since penalty has been \TS1/cmtt/m/n/9 `\T1
/pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] 
[3139]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a
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\T1/ptm/m/n/10 term []\T1/pcr/m/n/10 s(...,bs="cr",...)[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 s(...,bs="cs",...) []\T1/ptm/m/n/10 or
[3140] [3141]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3142] [3143]
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 []\T1/pcr/m/n/9 b <- gam(y~s(x,z,bs="ds",m=c(1,.5),k=50),data=data)  ## first 
deriv penalty[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13170--13170
 []\T1/pcr/m/n/9 b1 <- gam(y~s(x,z,bs="ds",m=c(2,.5),k=50),data=data) ## modifi
ed 2nd deriv[] 
[3144] [3145]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3146] [3147] [3148] [3149] [3150]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13573--13573
 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m
ethod="REML")[] 
[3151]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3152] [3153]
Underfull \hbox (badness 10000) in paragraph at lines 13793--13796
[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 smooth.construct []\T1/ptm/m/n/10 met
hod a smooth spec-i-fi-ca-tion ob-
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\T1/ptm/m/n/10 ject, usu-ally gen-er-ated by a term []\T1/pcr/m/n/10 s(x,...,bs
="re",)[]\T1/ptm/m/n/10 . For the
Underfull \hbox (badness 7099) in paragraph at lines 13793--13796
[]\T1/pcr/m/n/10 predict.Matrix []\T1/ptm/m/n/10 method an ob-ject of class []\
T1/pcr/m/n/10 "random.effect"
[3154] [3155]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13879--13879
 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with
 2 variances[] 
[3156]
Underfull \hbox (badness 10000) in paragraph at lines 13924--13930
[]\T1/ptm/m/n/10 A smooth spec-i-fi-ca-tion ob-ject as pro-duced by a
Underfull \hbox (badness 7832) in paragraph at lines 13924--13930
[]\T1/pcr/m/n/10 s(...,bs="so",xt=list(bnd=bnd,...)) []\T1/ptm/m/n/10 term in a
 []\T1/pcr/m/n/10 gam []\T1/ptm/m/n/10 for-
[3157] [3158] [3159]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 14139--14139
 []\T1/pcr/m/n/9 ## notice NULL element in \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 xt\TS1
/pcr/m/n/9 ' \T1/pcr/m/n/9 list - to indicate no xt object for "cr" basis...[] 
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Underfull \vbox (badness 10000) has occurred while \output is active [3161]
Underfull \hbox (badness 10000) in paragraph at lines 14242--14250
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths on th
e sphere, via terms like
Underfull \hbox (badness 10000) in paragraph at lines 14268--14269
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3162] [3163] [3164]
Underfull \hbox (badness 7613) in paragraph at lines 14413--14416
[]\T1/ptm/m/n/10 method an ob-ject of class []\T1/pcr/m/n/10 "sz.interaction" [
]\T1/ptm/m/n/10 pro-duced by the
[3165]
Underfull \hbox (badness 1546) in paragraph at lines 14434--14435
[]\T1/ptm/m/n/10 The terms can have a smooth-ing pa-ram-e-ter per smooth, or a 
sin-gle smooth-ing pa-ram-e-
Overfull \hbox (128.58029pt too wide) in paragraph at lines 14480--14480
 []\T1/pcr/m/n/9 b <- gam(y ~ s(x)+s(f1,x,bs="sz")+s(f2,x,bs="sz")+s(f1,f2,x,bs
="sz",id=1),data=dat,method="REML")[] 
[3166] [3167] [3168]
Underfull \hbox (badness 3396) in paragraph at lines 14626--14629
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths of an
y num-ber of vari-ables, spec-i-fied via terms like
Underfull \hbox (badness 10000) in paragraph at lines 14671--14673
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3169] [3170] [3171] [3172] [3173] [3174]
Underfull \hbox (badness 10000) in paragraph at lines 14962--14964
[]\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see
[3175]
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 t2[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 tprs[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/
10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 p.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 d.sp
line[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mrf[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 soap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Spherical
.Spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 adaptive.smooth[][][][]\T1
/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 user.defined.smooth[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/
m/n/10 smooth.construct.re.smooth.spec[][][][]\T1/ptm/m/n/10 ,
[3176] [3177] [3178] [3179] [3180]
Underfull \hbox (badness 2158) in paragraph at lines 15285--15285
[]\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma-
trix from
[3181]
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 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0,
centre=FALSE)[] 
[3182] [3183]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 15498--15498
 []                  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars
"),...)[] 
[3184] [3185]
Underfull \hbox (badness 4846) in paragraph at lines 15629--15632
[]\T1/ptm/m/n/10 The es-ti-mated co-vari-ance ma-trix of the pa-ram-e-ters (or 
es-ti-ma-tors if
[3186] [3187] [3188] [3189] [3190] [3191] [3192] [3193] [3194] [3195] [3196]
[3197] [3198] [3199] [3200] [3201] [3202] [3203] [3204] [3205]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 16847--16847
 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL,
unconditional=FALSE, ...)[] 
[3206]
Underfull \hbox (badness 1715) in paragraph at lines 16869--16870
[]\T1/ptm/m/n/10 Basically, just ex-tracts []\T1/pcr/m/n/10 object$Ve[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 object$Vp []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 object
$Vc []\T1/ptm/m/n/10 (if avail-able) from a
[3207] [3208] [3209]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 17059--17059
 []\T1/pcr/m/n/10 XWXd(X,w,k,ks,ts,dt,v,qc,nthreads=1,drop=NULL,ar.stop=-1,ar.r
ow=-1,ar.w=-1, 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 17061--17061
 []\T1/pcr/m/n/10 XWyd(X,w,y,k,ks,ts,dt,v,qc,drop=NULL,ar.stop=-1,ar.row=-1,ar.
w=-1,lt=NULL)[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17063--17063
 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt=
NULL)[] 
[3210]
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[]\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows
Underfull \hbox (badness 1668) in paragraph at lines 17083--17084
[]\T1/pcr/m/n/10 (ar.stop[i-1]+1):ar.stop[i] []\T1/ptm/m/n/10 of the rows se-le
cted by []\T1/pcr/m/n/10 ar.row
[3211]
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[3213]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17271--17271
 []\T1/pcr/m/n/9 ## 1. If the zero inflation rate becomes decoupled from the li
near predictor,[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 17272--17272
 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun
ded in regions[] 
[3214]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17284--17284
 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val
ues, to check we[] 
[3215] [3216] [3217]) (./nlme-pkg.tex [3218]
Chapter 25.
[3219]
Underfull \hbox (badness 1009) in paragraph at lines 84--93
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3220]
Underfull \hbox (badness 1009) in paragraph at lines 174--183
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3221] [3222] [3223] [3224] [3225]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 454--454
 []  \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3226] [3227]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 595--595
 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 ---------------------------
---------------[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 611--611
 []\T1/pcr/m/n/9 # Compare an "lme" object with a "gls" object (test would be n
on-sensical!)[] 
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 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 ---------------------------
---------------[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 621--621
 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 ---------------------------
---------------[] 
[3228] [3229] [3230] [3231] [3232] [3233] [3234] [3235]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1084--1084
 []                  \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil
lary fissure"),[] 
[3236]
Underfull \hbox (badness 5446) in paragraph at lines 1146--1148
[]\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 http://stat.gamma.rug.nl/snijders/multilevel
.htm[]\T1/ptm/m/n/10 ', the first edi-tion of
[3237] [3238] [3239] [3240] [3241] [3242] [3243]
Underfull \hbox (badness 10000) in paragraph at lines 1625--1628
[][][]\T1/pcr/m/n/10 lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fixed.
effects.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ranef.lmList[][][][
]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.ranef.lmList[][][][]\T1/ptm/m/n/10 
,
[3244]
Underfull \hbox (badness 3780) in paragraph at lines 1642--1644
[]\T1/ptm/m/n/10 This method func-tion ex-tracts the co-ef-fi-cients as-so-ci-a
ted with each com-po-nent of the
[3245] [3246] [3247] [3248] [3249]
Underfull \hbox (badness 2042) in paragraph at lines 1989--1995
\T1/ptm/m/n/10 is in-ner to the []\T1/pcr/m/n/10 displayLevel []\T1/ptm/m/n/10 
group-ing fac-tor. If equal to []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 ,
[3250] [3251]
Underfull \hbox (badness 1132) in paragraph at lines 2141--2143
[]\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac
ted us-ing the
[3252] [3253]
Underfull \hbox (badness 4168) in paragraph at lines 2252--2258
[][][]\T1/pcr/m/n/10 ACF.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corAR
MA[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 Dim.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 ,
[3254]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2277--2277
 []  \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3255] [3256] [3257] [3258] [3259] [3260] [3261] [3262]
Underfull \hbox (badness 10000) in paragraph at lines 2842--2846
[][][]\T1/pcr/m/n/10 corFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cor
Matrix.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 recalc.corStruct[
][][][]\T1/ptm/m/n/10 ,
[3263] [3264] [3265] [3266] [3267] [3268pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d
uplicate ignored
<argument> ...shipout:D \box_use:N \l_shipout_box 
                                                  
l.3185 ...trix(cs1, covariate = 1:4, corr = FALSE)
                                                  ] [3269] [3270] [3271]
[3272] [3273] [3274]
Underfull \hbox (badness 6493) in paragraph at lines 3577--3585
[][][]\T1/pcr/m/n/10 corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corGau
s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corLin[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corSp
her[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T
1/ptm/m/n/10 ,
[3275] [3276] [3277] [3278] [3279] [3280] [3281] [3282] [3283] [3284] [3285]
[3286] [3287] [3288] [3289] [3290] [3291] [3292] [3293] [3294] [3295] [3296]
[3297] [3298]
Underfull \hbox (badness 10000) in paragraph at lines 5157--5161
[][][]\T1/pcr/m/n/10 getCovariate.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/p
cr/m/n/10 getCovariate.data.frame[][][][]\T1/ptm/m/n/10 ,
[3299] [3300] [3301] [3302] [3303] [3304] [3305]
Underfull \hbox (badness 10000) in paragraph at lines 5591--5594
[][][]\T1/pcr/m/n/10 getGroupsFormula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGroups
.gls[][][][]\T1/ptm/m/n/10 ,
[3306] [3307] [3308] [3309] [3310] [3311] [3312] [3313] [3314]
Underfull \hbox (badness 2799) in paragraph at lines 6097--6103
\T1/ptm/m/n/10 covariance ma-trix, ei-ther []\T1/pcr/m/n/10 "random.effects" []
\T1/ptm/m/n/10 for the random-effects
[3315]
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[]\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [
]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 ,
[3316]
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[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gl
sControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 glsObject[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 plot.gls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gls[][][][]
\T1/ptm/m/n/10 ,
[3317]
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[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3318] [3319] [3320] [3321]
Underfull \hbox (badness 7133) in paragraph at lines 6558--6562
[]\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [
]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 ,
[3322]
Underfull \hbox (badness 10000) in paragraph at lines 6655--6661
[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gn
lsControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsObject[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 predict.gnls[][][][]\T1/ptm/m/n/10 ,
Overfull \hbox (54.78088pt too wide) in paragraph at lines 6682--6682
 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min
Scale = 0.001, 
[3323]
Underfull \hbox (badness 10000) in paragraph at lines 6720--6722
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3324] [3325] [3326] [3327]
Underfull \hbox (badness 10000) in paragraph at lines 6989--6996
[][][]\T1/pcr/m/n/10 formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gappl
y[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gsummary[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nff
GroupedData[][][][]\T1/ptm/m/n/10 ,
[3328]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7007--7007
 []                \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla
ry fissure" ),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7012--7012
 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new )   # fixed and groups formulae extracted
 from object[] 
Underfull \hbox (badness 2875) in paragraph at lines 7034--7036
[]\T1/ptm/m/n/10 an ob-ject to be sum-ma-rized - usu-ally a []\T1/pcr/m/n/10 gr
oupedData []\T1/ptm/m/n/10 ob-ject or a
[3329] [3330] [3331]
Underfull \hbox (badness 10000) in paragraph at lines 7249--7254
[][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr
/m/n/10 Initialize.lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi
alize.glsStruct[][][][]\T1/ptm/m/n/10 ,
[3332] [3333] [3334]
Underfull \hbox (badness 1997) in paragraph at lines 7400--7408
[]\T1/ptm/m/n/10 an op-tional list with con-trol pa-ram-e-ters for the ini-tial
-iza-tion and op-ti-
Underfull \hbox (badness 2205) in paragraph at lines 7400--7408
\T1/ptm/m/n/10 miza-tion al-go-rithms used in []\T1/pcr/m/n/10 lme[]\T1/ptm/m/n
/10 . De-faults to []\T1/pcr/m/n/10 list(niterEM=20,
Underfull \hbox (badness 3118) in paragraph at lines 7423--7426
[][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initializ
e.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.varFunc[][][][]\T1/ptm/m/
n/10 ,
[3335] [3336] [3337]
Underfull \hbox (badness 3354) in paragraph at lines 7639--7641
[]\T1/ptm/m/n/10 linear model co-ef-fi-cients, only present when []\T1/pcr/m/n/
10 which []\T1/ptm/m/n/10 is not equal to
[3338] [3339] [3340] [3341] [3342] [3343] [3344] [3345]
Underfull \hbox (badness 10000) in paragraph at lines 8166--8183
[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lm
e.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme.groupedData[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmeControl[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 lmeObject[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 8166--8183
[][][]\T1/pcr/m/n/10 lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmL
ist[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 plot.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
predict.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qqnorm.lme[][][][]\T1/
ptm/m/n/10 ,
[3346]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 8209--8209
 []    \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data 
= TRUE)[] 
Underfull \hbox (badness 1642) in paragraph at lines 8218--8240
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o
f the form
[3347] [3348] [3349] [3350]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8483--8483
 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni
terEM = 25, 
Underfull \hbox (badness 1189) in paragraph at lines 8508--8510
[]\T1/ptm/m/n/10 maximum num-ber of eval-u-a-tions of the ob-jec-tive func-tion
 per-mit-ted for
[3351]
Underfull \hbox (badness 10000) in paragraph at lines 8531--8533
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8574--8574
 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio
ns be printed[] 
[3352] [3353] [3354] [3355] [3356] [3357] [3358] [3359] [3360] [3361] [3362]
[3363]
Underfull \hbox (badness 10000) in paragraph at lines 9337--9344
[][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 gls[][][][
]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.corStruct[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 logLik.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 logLik.lmeStruct[][][][]\T1/ptm/m/n/10 ,
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9348--9348
 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me
thod = "ML") 
[3364] [3365] [3366] [3367] [3368]pdfTeX warning (ext4): destination with the s
ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9699 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.Matrix.1}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.9699 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                   [3369]
Underfull \hbox (badness 10000) in paragraph at lines 9719--9722
[]\T1/ptm/m/n/10 a ma-trix, or list of ma-tri-ces, with the same di-men-sions a
s
Underfull \hbox (badness 3108) in paragraph at lines 9763--9766
[]\T1/ptm/m/n/10 a ma-trix with the new val-ues to be as-signed to the positive
-definite
Underfull \hbox (badness 2521) in paragraph at lines 9763--9766
\T1/ptm/m/n/10 ma-trix rep-re-sented by []\T1/pcr/m/n/10 object[]\T1/ptm/m/n/10
 . Must have the same di-men-sions as
[3370] [3371] [3372] [3373] [3374] [3375] [3376] [3377] [3378] [3379] [3380]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10443--10443
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights, 
[3381]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10447--10447
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
Underfull \hbox (badness 1596) in paragraph at lines 10476--10502
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o
f the form
[3382] [3383]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10630--10630
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
[3384] [3385] [3386]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 10781--10781
 []            \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma =
 NULL, ...)[] 
Underfull \hbox (badness 2213) in paragraph at lines 10792--10797
[]\T1/ptm/m/n/10 maximum num-ber of it-er-a-tions for [][][]\T1/pcr/m/n/10 nlmi
nb[][][] []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 iter.max[]\T1/ptm/m/n/10 ) or the [
][][]\T1/pcr/m/n/10 nlm[][][]
Underfull \hbox (badness 6961) in paragraph at lines 10814--10818
[]\T1/ptm/m/n/10 a log-i-cal value passed as the []\T1/pcr/m/n/10 trace []\T1/p
tm/m/n/10 to [][][]\T1/pcr/m/n/10 nlminb[][][](.., control=
[3387]
Underfull \hbox (badness 10000) in paragraph at lines 10833--10835
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3388] [3389] [3390] [3391]
Overfull \hbox (96.18033pt too wide) in paragraph at lines 11129--11129
 []\T1/pcr/m/n/9 cfm1 <- confint(fm1) # via profiling each % FIXME: only *one* 
message instead of one *each*[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 11130--11130
 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4
.0.0;  ("matrix" in older R)[] 
[3392] [3393] [3394] [3395] [3396] [3397]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11520--11520
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3398] [3399] [3400] [3401] [3402] [3403]
Underfull \hbox (badness 6268) in paragraph at lines 11907--11917
[][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC
ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdMatrix[][][][]\T1/ptm/m/n/10 ,
[3404] [3405] [3406] [3407]
Underfull \hbox (badness 10000) in paragraph at lines 12168--12174
[][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 coef.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 pdConstruct[][][][]\T1/ptm/m/n/10 ,
[3408] [3409] [3410] [3411] [3412]
Underfull \hbox (badness 6876) in paragraph at lines 12490--12492
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 value []\T1/ptm/m/n/10 is an \T1/ptm/m/it/
10 ini-tial-ized []\T1/pcr/m/n/10 pdMat []\T1/ptm/m/n/10 ob-ject, []\T1/pcr/m/n
/10 object []\T1/ptm/m/n/10 will be con-structed from
[3413] [3414]
Underfull \hbox (badness 2452) in paragraph at lines 12646--12653
[][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC
ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
pdNatural[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdSymm[][][][]\T1/ptm/m/
n/10 , [][][]\T1/pcr/m/n/10 reStruct[][][][]\T1/ptm/m/n/10 ,
[3415]
Underfull \hbox (badness 10000) in paragraph at lines 12712--12718
[][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 pdMatrix.reStruct[][][][]\T1/ptm/m/n/10 ,
[3416] [3417] [3418] [3419] [3420] [3421] [3422] [3423] [3424]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 13301--13301
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3425] [3426] [3427] [3428] [3429]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13666--13666
 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 
0, id = 0.05)[] 
[3430]
Underfull \hbox (badness 10000) in paragraph at lines 13693--13696
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nffGroupe
dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a
[3431]
Underfull \hbox (badness 1838) in paragraph at lines 13736--13743
[]\T1/ptm/m/n/10 an op-tional log-i-cal func-tion or func-tion. If []\T1/pcr/m/
n/10 TRUE []\T1/ptm/m/n/10 and ei-ther []\T1/pcr/m/n/10 inner
Underfull \hbox (badness 3713) in paragraph at lines 13736--13743
[]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 innerGroups []\T1/ptm/m/n/10 are non-[]\T1
/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , a leg-end for the dif-fer-ent []\T1/pcr/m/n/
10 inner
Overfull \hbox (12.78088pt too wide) in paragraph at lines 13793--13793
 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect,
 panel,[] 
[3432]
Underfull \hbox (badness 10000) in paragraph at lines 13800--13803
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nfnGroupe
dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a
Underfull \hbox (badness 2469) in paragraph at lines 13800--13803
[]\T1/pcr/m/n/10 groupedData []\T1/ptm/m/n/10 ob-ject with a nu-meric pri-mary 
co-vari-ate and a sin-gle
[3433]
Underfull \hbox (badness 10000) in paragraph at lines 13908--13911
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nmGrouped
Data[]\T1/ptm/m/n/10 , rep-re-sent-ing a
[3434] [3435]
Underfull \hbox (badness 10000) in paragraph at lines 14002--14004
[][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 c
ollapse.groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nfnGroupe
dData[][][][]\T1/ptm/m/n/10 ,
[3436] [3437] [3438] [3439] [3440] [3441] [3442] [3443]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 14526--14526
 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female",
"Male","Male"),[] 
[3444] [3445] [3446] [3447] [3448] [3449] [3450] [3451] [3452]pdfTeX warning (e
xt4): destination with the same identifier (name{Rfn.random.effects}) has been 
already used, duplicate ignored
<to be read again> 
                   \relax 
l.15179 ...Extract Random Effects}{random.effects}
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ation with the same identifier (name{Rfn.random.effects.1}) has been already us
ed, duplicate ignored
<to be read again> 
                   \relax 
l.15179 ...Extract Random Effects}{random.effects}
                                                   [3453] [3454] [3455]
[3456] [3457] [3458] [3459] [3460] [3461] [3462] [3463]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 15826--15826
 []\T1/pcr/m/n/9 plot(Remifentanil, type = "l", lwd = 2) # shows the 65 patient
s\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 remi profiles 
[3464]
Underfull \hbox (badness 1009) in paragraph at lines 15878--15887
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3465] [3466]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 16025--16025
 []          \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi
st = FALSE, ...)[] 
[3467] [3468] [3469] [3470] [3471]
Underfull \hbox (badness 10000) in paragraph at lines 16360--16366
[][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 l
me[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 solve.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 summary.reStruct[][][][]\T1/ptm/m/n/10 ,
[3472]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 16392--16392
 []         \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG
en, ...)[] 
[3473] [3474] [3475] [3476] [3477] [3478] [3479]
Underfull \hbox (badness 1728) in paragraph at lines 16878--16881
[]\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou
t-put in the
[3480] [3481] [3482] [3483] [3484]
Underfull \hbox (badness 1803) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 of an Identity" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdIdent[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Positive-Definite,
Underfull \hbox (badness 10000) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 Natural Parametrization" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 p
dNatural[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General
Underfull \hbox (badness 7888) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 Positive-Definite" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdSymm[
]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 data.class(object)
[3485]
Underfull \hbox (badness 10000) in paragraph at lines 17283--17284
[]\T1/pcr/m/n/10 "Constant plus power of variance
Underfull \hbox (badness 10000) in paragraph at lines 17284--17285
[]\T1/pcr/m/n/10 "Constant plus proportion of variance
[3486] [3487] [3488] [3489]
Underfull \hbox (badness 10000) in paragraph at lines 17534--17542
[][][]\T1/pcr/m/n/10 varComb[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varCo
nstPower[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varConstProp[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 varExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 varFixed[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varIdent[][][][]\T1
/ptm/m/n/10 ,
[3490] [3491] [3492] [3493]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 17806--17806
 []\T1/pcr/m/n/9 # Generate some synthetic data using the two-component error m
odel and use 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17808--17808
 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v
ariance function[] 
[3494] [3495] [3496] [3497] [3498] [3499]
Underfull \hbox (badness 10000) in paragraph at lines 18244--18254
[][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co
rLin[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 18244--18254
[][][]\T1/pcr/m/n/10 Variogram.corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 Variogram.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogr
am.corSpher[][][][]\T1/ptm/m/n/10 ,
[3500]
Underfull \hbox (badness 3579) in paragraph at lines 18282--18287
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3501]
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3502]
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3503]
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[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 "[][]corR
atio[][][]"[]\T1/ptm/m/n/10 , rep-re-sent-ing an Ra-tio-nal
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3504]
Underfull \hbox (badness 3579) in paragraph at lines 18535--18540
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
Underfull \hbox (badness 10000) in paragraph at lines 18568--18577
[][][]\T1/pcr/m/n/10 corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Va
riogram[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.default[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 18568--18577
[][][]\T1/pcr/m/n/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 Variogram.corLin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co
rRatio[][][][]\T1/ptm/m/n/10 ,
[3505]
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3506] [3507]
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[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3508] [3509]
Underfull \hbox (badness 1009) in paragraph at lines 18885--18894
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3510] [3511] [3512] [3513] [3514] [3515] [3516] [3517] [3518]) (./nnet-pkg.tex
Chapter 26.
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<to be read again> 
                   \relax 
l.47 ...t Multinomial Log-linear Models}{multinom}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.multinom.1}) has been already used, du
plicate ignored
<to be read again> 
                   \relax 
l.47 ...t Multinomial Log-linear Models}{multinom}
                                                   [3519]
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 []         \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored =
 FALSE,[] 
[3520] [3521] [3522]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 371--371
 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3523]
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 []\T1/pcr/m/n/9 targets <- matrix(c(rep(c(1,0,0),50), rep(c(0,1,0),50), rep(c(
0,0,1),50)),[] 
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 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay
=5e-4, maxit=200)[] 
[3524] [3525]
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 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3526]) (./rpart-pkg.tex
Chapter 27.
[3527] [3528] [3529] [3530]
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 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse =
 TRUE, ...)[] 
[3531]
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\T1/ptm/m/n/10 age: []\T1/pcr/m/n/10 pretty = 0 []\T1/ptm/m/n/10 im-plies []\T1
/pcr/m/n/10 minlength = 0L[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pretty = NULL []\
T1/ptm/m/n/10 im-plies
[3532] [3533] [3534]
Underfull \hbox (badness 1442) in paragraph at lines 592--598
[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , the leaf nodes wil
l be at the hor-i-zon-tal plot co-or-di-nates of
[3535] [3536]
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 []     \T1/pcr/m/n/10 filename = paste(deparse(substitute(tree)), ".ps", sep =
 ""),[] 
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[]\T1/ptm/m/n/10 Logical. If []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault),
 adds to the la-bel
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\T1/pcr/m/n/10 #events level1/ #events level2/ \T1/ptm/m/n/10 etc. for method [
]\T1/pcr/m/n/10 class[]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 n
[3537] [3538] [3539]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 915--915
 []\T1/pcr/m/n/9 predict(fit, type = "matrix") # level number, class frequencie
s, probabilities[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 934--934
 []\T1/pcr/m/n/10 print(x, minlength = 0, spaces = 2, cp, digits = getOption("d
igits"),[] 
[3540] [3541] [3542] [3543]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 1180--1180
 []\T1/pcr/m/n/10 rpart(formula, data, weights, subset, na.action = na.rpart, m
ethod, 
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 []      \T1/pcr/m/n/10 model = FALSE, x = FALSE, y = TRUE, parms, control, cos
t, ...)[] 
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[]\T1/ptm/m/n/10 a list of op-tions that con-trol de-tails of the []\T1/pcr/m/n
/10 rpart []\T1/ptm/m/n/10 al-go-rithm. See
[3544]
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 []\T1/pcr/m/n/9 par(mfrow = c(1,2), xpd = NA) # otherwise on some devices the 
text is clipped[] 
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 []\T1/pcr/m/n/10 rpart.control(minsplit = 20, minbucket = round(minsplit/3), c
p = 0.01, 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1304--1304
 []              \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate 
= 2, xval = 10,[] 
[3545] [3546] [3547] [3548] [3549] [3550] [3551]
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[]\T1/ptm/m/n/10 the ploidy sta-tus of the tu-mor, from flow cy-tom-e-try. Val-
ues are `[]\T1/pcr/m/n/10 diploid[]\T1/ptm/m/n/10 ',
[3552]
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 []     \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n =
 FALSE,[] 
[3553] [3554] [3555]) (./spatial-pkg.tex [3556]
Chapter 28.
[3557] [3558] [3559] [3560] [3561] [3562]
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[3563] [3564] [3565] [3566] [3567] [3568] [3569] [3570] [3571] [3572] [3573]
[3574] [3575]) (./survival-pkg.tex [3576]
Chapter 29.
[3577] [3578]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 173--173
 []\T1/pcr/m/n/9 aareg(formula = Surv(time, status) ~ age + sex + ph.ecog, data
 = lung, nmin = 1[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 192--192
 []\T1/pcr/m/n/9 ## Not run: lines(lfit2[4], col=2)  # Nearly the same, until t
he last point[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 195--195
 []\T1/pcr/m/n/9 # Chronic Granuomatous Disease.  See section 8.5 of Therneau a
nd Grambsch.[] 
[3579] [3580]
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[]\T1/ptm/m/n/10 an op-tional list or vec-tor of group-ing el-e-ments, each as 
long as
[3581] [3582]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.aml}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.384 ... Myelogenous Leukemia survival data}{aml}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.aml.1}) has been already used, duplica
te ignored
<to be read again> 
                   \relax 
l.384 ... Myelogenous Leukemia survival data}{aml}
                                                   [3583]
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 []\T1/pcr/m/n/9 fit <- coxph(Surv(futime, fustat) ~ resid.ds *rx + ecog.ps, da
ta = ovarian) 
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 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d
ata=ovarian)[] 
[3584]
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 []    \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog),
 lung)[] 
[3585]
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[]\T1/ptm/m/n/10 If H(t; z) is the pre-dicted cu-mu-la-tive haz-ard for an ob-s
er-va-tion with co-vari-ate vec-tor z,
[3586] [3587] [3588]
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 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) #
2 year survival 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 808--808
 []\T1/pcr/m/n/10 brier(fit, times, newdata, ties = TRUE, detail = FALSE, timef
ix = TRUE, 
[3589]
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 []    \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan",
"II.Borgan"),[] 
[3590] [3591] [3592]
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 []   \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz
e=stratsizes,[] 
[3593] [3594]
Underfull \hbox (badness 1097) in paragraph at lines 1205--1207
[]\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi
al and negative-binomial data.
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 []\T1/pcr/m/n/9 ppois(4, 10.24153)     #chance of seeing 4 or fewer events wit
h large rate[] 
[3595] [3596]
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 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat
um), data=infert) 
[3597]
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 []\T1/pcr/m/n/9 marginal.model <- coxph(Surv(time, status) ~ rx, data= rats, c
luster=litter, 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colon}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1407 ...erapy for Stage B/C colon cancer}{colon}
                                                   [3598] [3599]
Overfull \hbox (72.78088pt too wide) in paragraph at lines 1507--1507
 []  \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke
epstrata=10, ...)[] 
[3600] [3601] [3602]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1733--1733
 []\T1/pcr/m/n/9 options(na.action = na.exclude)   # predict all 1384 obs, incl
uding missing[] 
[3603]
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 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob
al=TRUE) 
[3604] [3605] [3606] [3607]
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[]\T1/ptm/m/n/10 One user mis-take that has re-cently arisen is to slav-ishly f
ol-low the ad-vice of
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\T1/ptm/m/n/10 some cod-ing guides and prepend []\T1/pcr/m/n/10 survival:: []\T
1/ptm/m/n/10 onto ev-er-thing, in-clud-ing the spe-
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\T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv
(time, status) ~ age +
[3608] [3609]
Underfull \hbox (badness 3861) in paragraph at lines 2238--2242
[][][]\T1/pcr/m/n/10 coxph.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
coxphms.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxph.control[][][]
[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cluster[][][][]\T1/ptm/m/n/10 , [][][]\
T1/pcr/m/n/10 strata[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Surv[][][][]\
T1/ptm/m/n/10 ,
[3610]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2293--2293
 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix
=TRUE)[] 
[3611] [3612] [3613] [3614] [3615] [3616] [3617] [3618]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2923--2923
 [] \T1/pcr/m/n/9 [1] "extreme"     "logistic"    "gaussian"    "weibull"     "
exponential"[] 
[3619]
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 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, 
etype, 
[3620] [3621] [3622]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3208--3208
 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t
df = 5,[] 
[3623] [3624] [3625]
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[]\T1/ptm/m/n/10 outcome: []\T1/pcr/m/n/10 censor[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 thymic lymphoma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 reticulum cell sarcoma
 other
[3627] [3628]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3614--3614
 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt
y(id), kidney) 
[3629]
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 []           \T1/pcr/m/n/9 factor(c(0, 1, 2,1,0,2), 0:2, c("censored", "progre
ssion", "death")))[] 
Underfull \hbox (badness 1389) in paragraph at lines 3663--3665
[]\T1/ptm/m/n/10 Often used to add the ex-pected sur-vival curve(s) to a Kaplan
-Meier plot gen-er-ated with
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 []        \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar
csin"),[] 
[3630] [3631]
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 []                 \T1/pcr/m/n/9 rmap=list(sex=sex, age=age*365.35, year=as.Da
te(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 1979/01/01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] 
[3632] [3633]
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 [] [] 
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[3635]
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 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential
ly the same.[] 
[3636] [3637] [3638] [3639] [3640] [3641] [3642] [3643]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4522--4522
 []                    \T1/pcr/m/n/9 entry.dt = as.Date(paste("2011", 1:10, "5"
, sep=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 -\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] 
[3644] [3645]
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 []\T1/pcr/m/n/9 tdata <- data.frame(x= lung$age, y = 10*log(lung$age-35) + rno
rm(228, 0, 2))[] 
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 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4681--4681
 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1])  # differences: yhat[2:
4] - yhat[1][] 
[3646]
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[3648] [3649] [3650]
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 []        \T1/pcr/m/n/10 xlab="Time", ylab, lty=1:2, col=1, lwd=1, hr=FALSE, p
lot=TRUE, ...)[] 
[3651] [3652]
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 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca
le=1,[] 
[3653] [3654] [3655]
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 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), 
collapse,[] 
[3656] [3657]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5474--5474
 []\T1/pcr/m/n/9 mresid <- (lung$status-1) - predict(fit, type=\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 expected\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ) #Martingale resid[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5482--5482
 []  \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means
, na.rm=TRUE)[] 
[3658]
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 []\T1/pcr/m/n/9 pct <- 1:98/100   # The 100th percentile of predicted survival
 is at +infinity[] 
[3659]
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 []  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE
, ...)[] 
[3660]
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[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.survfit"[]\T1/pt
m/m/n/10 , which is the re-sult of the
[3661] [3662] [3663] [3664]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5970--5970
 []\T1/pcr/m/n/9 rhat <- predict(rfit, newdata=expand.grid(ph.ecog=0:3, sex=1:2
), se.fit=TRUE)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5982--5982
 []\T1/pcr/m/n/9 # the estimate for ph.ecog=3 is very unstable (n=1), pseudoval
ues smooth it.[] 
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 []\T1/pcr/m/n/9 # In all the above we should be using the robust variance, e.g
., svyglm, but[] 
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 []\T1/pcr/m/n/10 pspline(x, df=4, theta, nterm=2.5 * df, degree=3, eps=0.1, me
thod, 
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 []   \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co
mbine, ...)[] 
[3665] [3666] [3667]
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 []  \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year=
entry.dt),[] 
[3668]
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 []\T1/pcr/m/n/9 pfit <- pyears(Surv(ptime/365.25, pstat) ~ temp.yr + temp.age 
+ sex,  mgus,[] 
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 []\T1/pcr/m/n/9 fit1 <- pyears(Surv(stop/365.25, event) ~ cut(age + 48, c(0,50
,60,70,100)) +[] 
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 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5
0,60,70,100)) +[] 
[3669] [3670] [3671] [3672]
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[3674] [3675]
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 []\T1/pcr/m/n/9 #  natural target, an estimate of the number of replacements b
y a given time[] 
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 []\T1/pcr/m/n/9 # When two valve seats failed at the same inspection, we need 
to jitter one[] 
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 []\T1/pcr/m/n/9 ties <- which(with(valveSeat, diff(id)==0 & diff(time)==0))  #
first of a tie[] 
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 []\T1/pcr/m/n/9 vdata$time1 <- ifelse(!duplicated(vdata$id), 0, c(0, temp[-len
gth(temp)]))[] 
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 []       \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe
tas")), ...)[] 
[3676] [3677]
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 []    \T1/pcr/m/n/10 type="pstate", collapse=FALSE, weighted= collapse, data.f
rame=FALSE,[] 
[3678]
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 []\T1/pcr/m/n/10 residuals(object, type=c("response", "deviance","dfbeta","dfb
etas",[] 
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[]\T1/pcr/m/n/10 "dfbetas"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "working"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "ldcase"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lsresp
"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ldshape"[]\T1/ptm/m/n/10 , and
[3679] [3680] [3681] [3682] [3683]
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 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the
ta=5), lung)[] 
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 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog
, theta=1), lung)[] 
[3684] [3685] [3686]
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 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id
, timefix = TRUE, 
[3687]
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 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)]  # rem
ove duplicate times[] 
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 []\T1/pcr/m/n/9 wt2 <- rttright(Surv(dtime, death) ~ hormon, rotterdam, times=
 365*c(3, 5))[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solder}) 
has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7569 ...ata from a soldering experiment}{solder}
                                                   [3688] [3689]
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 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1,
 col = 1, 
[3690] [3691] [3692] [3693] [3694]
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 []\T1/pcr/m/n/10 event = TRUE, pyears = TRUE, expected = TRUE, rate = FALSE, r
r =expected,[] 
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 []\T1/pcr/m/n/10 ci.r = FALSE, ci.rr = FALSE, totals=FALSE, legend = TRUE, vli
ne = FALSE,[] 
[3695] [3696]
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 []  \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/
10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, dosum, ...
)[] 
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 []  \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/
10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, ...)[] 
[3697] [3698] [3699]
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 []    \T1/pcr/m/n/10 type=c(\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 right\TS1/pcr/m/n/
10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 left\TS1/pcr/m/n/10 '\T1/p
cr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval\TS1/pcr/m/n/10 '\T1/pcr/m/
n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 counting\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 
, \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval2\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \T
S1/pcr/m/n/10 '\T1/pcr/m/n/10 mstate\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ),[] 
[3700] [3701] [3702]
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 median[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10
 quantile []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 meth-ods 
first con-struct a sur-vival curve us-ing
[3703] [3704]
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 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat
e0="(s0)", 
[3705] [3706]
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 []\T1/pcr/m/n/10 survcondense(formula, data, subset, weights, na.action= na.pa
ss, id, 
[3707] [3708] [3709]
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 []                  \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1
, year=accept.dt),[] 
[3710]
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 []        \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv
idual.h",[] 
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[]\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre
-dicted sur-vival
[3711]
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 []                      \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d
t-entry.dt)),[] 
[3712]
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 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival 
by 1/2 years[] 
[3713] [3714] [3715]
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[][][]\T1/pcr/m/n/10 survfit.formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 survfit.coxph[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 survfit.object[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.survfit[][][][]\T1/ptm/m/n/10 
,
[3716]
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 []        \T1/pcr/m/n/10 se.fit=TRUE, conf.int=.95, individual=FALSE, stype=2,
 ctype,[] 
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 []        \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", 
"arcsin"),[] 
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 []        \T1/pcr/m/n/10 se.fit=FALSE, conf.int=.95, individual=FALSE, stype=2
, ctype,[] 
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 []        \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", 
"arcsin"),[] 
[3717] [3718] [3719]
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 []        \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi
x=TRUE,[] 
[3720]
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[]\T1/ptm/m/n/10 by de-fault, the surv-fit rou-tines only re-turn in-for-ma-tio
n at the
[3721]
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\T1/pcr/m/n/10 ctype=1[]\T1/ptm/m/n/10 , "fleming-harrington" which is equiv-a-
lent to []\T1/pcr/m/n/10 stype=2,
[3722] [3723]
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 []\T1/pcr/m/n/9 #  There are no interval censored subjects, only left-censored
 (status=3),[] 
[3724] [3725] [3726] [3727] [3728]
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 []\T1/pcr/m/n/10 survfitcoxph.fit(y, x, wt, x2, risk, newrisk, strata, se.fit,
 survtype, 
[3729]
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[]\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th
e time range
[3730]
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 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # 
use concordance 
[3731] [3732]
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\T1/ptm/m/n/10 it is as-sumed to name an el-e-ment from [][][]\T1/pcr/m/n/10 su
rvreg.distributions[][][][]\T1/ptm/m/n/10 .
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\T1/ptm/m/n/10 These in-clude []\T1/pcr/m/n/10 "weibull"[]\T1/ptm/m/n/10 , []\T
1/pcr/m/n/10 "exponential"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "gaussian"[]\T1/p
tm/m/n/10 ,
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[]\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 ,[]\T1/pcr/m/n/10 "lognormal" []\T1
/ptm/m/n/10 and []\T1/pcr/m/n/10 "loglogistic"[]\T1/ptm/m/n/10 . Oth-er-wise, i
t is
[3733]
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 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi
on. The survreg[] 
[3734] [3735] [3736]
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 []                 \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] 
[3737] [3738]
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 []                            \T1/pcr/m/n/9 temp/pi, -2 *x*temp, 2*temp^2*(4*x
^2*temp -1))[] 
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 []                 \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] 
[3739] [3740]
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 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100
0, data=test)[] 
[3741] [3742]
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 []\T1/pcr/m/n/9 # The first data set contains data on 312 subjects in a clinic
al trial plus[] 
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 []\T1/pcr/m/n/9 # 106 that agreed to be followed off protocol, the second data
 set has data[] 
[3743]
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 []               \T1/pcr/m/n/9 protime = tdc(day, protime), alk.phos = tdc(day
, alk.phos))[] 
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 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil
i), data=pbc2)[] 
[3744] [3745] [3746] [3747] [3748] [3749] [3750]
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 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l
inear",[] 
[3751] [3752] [3753]) [3754] (./fullrefman.ind [3755] [3756] [3757] [3758]
[3759] [3760] [3761] [3762] [3763] [3764] [3765] [3766] [3767] [3768] [3769]
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[3781]
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[]| \T1/pcr/m/n/10 smooth.construct.ad.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.bs.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.cr.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.fs.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.gp.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.ps.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.re.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.sos.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.sz.smooth.spec\T1/ptm/m/n/10 , 
[3782]
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[]| \T1/pcr/m/n/10 smooth.construct.t2.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.tensor.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , 
[3783] [3784] [3785] [3786] [3787] [3788]
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[]| \T1/pcr/m/n/10 smooth.construct.ad.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.cr.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.ds.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.fs.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.gp.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.ps.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.re.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.sos.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.sz.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.t2.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.tensor.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , 
[3789]
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[]| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , 
[3790] [3791] [3792] [3793] [3794] [3795] [3796] [3797] [3798] [3799]
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[]\T1/pcr/m/n/10 [,Matrix,index,index,logical-method 
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[]\T1/pcr/m/n/10 [,Matrix,index,index,missing-method 
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[]\T1/pcr/m/n/10 [,Matrix,index,missing,logical-method 
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[]\T1/pcr/m/n/10 [,sparseVector,NULL,ANY,ANY-method 
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[3800]
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[]\T1/pcr/m/n/10 Arith,triangularMatrix,diagonalMatrix-method 
[3810] [3811]
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[]\T1/pcr/m/n/10 aspell_write_personal_dictionary_file 
[3812]
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\T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.bs.smooth.spec\T1/ptm/m/it/10
 )\T1/ptm/m/n/10 , 
[3813] [3814]
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\T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/
ptm/m/n/10 , 
[3815] [3816] [3817]
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[]\T1/pcr/m/n/10 chol2inv,triangularMatrix-method 
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[]\T1/pcr/m/n/10 Cholesky,triangularMatrix-method 
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\T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/
ptm/m/n/10 , 
[3818] [3819] [3820]
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[]\T1/pcr/m/n/10 coerce,BunchKaufman,dtrMatrix-method 
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[]\T1/pcr/m/n/10 coerce,CHMsimpl,dtCMatrix-method 
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[]\T1/pcr/m/n/10 coerce,CHMsuper,dgCMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Cholesky,dtrMatrix-method 
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[]\T1/pcr/m/n/10 coerce,copMatrix,corMatrix-method 
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[]\T1/pcr/m/n/10 coerce,corMatrix,copMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dgCMatrix,matrix.csc-method 
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[]\T1/pcr/m/n/10 coerce,dgRMatrix,matrix.csr-method 
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[]\T1/pcr/m/n/10 coerce,dgTMatrix,matrix.coo-method 
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[]\T1/pcr/m/n/10 coerce,diagonalMatrix,symmetricMatrix-method 
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[]\T1/pcr/m/n/10 coerce,diagonalMatrix,triangularMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dpoMatrix,corMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dpoMatrix,dppMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dppMatrix,copMatrix-method 
[3821]
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[]\T1/pcr/m/n/10 coerce,dppMatrix,dpoMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dspMatrix,copMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dspMatrix,dppMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dsyMatrix,corMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dsyMatrix,dpoMatrix-method 
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[]\T1/pcr/m/n/10 coerce,factor,sparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,generalMatrix,packedMatrix-method 
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[]\T1/pcr/m/n/10 coerce,graph,CsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,graph,RsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,graph,sparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,graph,TsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,graphAM,TsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,graphNEL,TsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,CsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix,CsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,ddenseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix,ddenseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,denseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix,denseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,diagonalMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix,diagonalMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,dsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix,dsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,generalMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix,generalMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,ldenseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix,ldenseMatrix-method 
[3822]
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[]\T1/pcr/m/n/10 coerce,Matrix,lsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,ndenseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,packedMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,symmetricMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix,symmetricMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,triangularMatrix-method 
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[]\T1/pcr/m/n/10 coerce,Matrix,unpackedMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix.coo,CsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix.coo,dgCMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix.csc,CsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,matrix.csc,dgCMatrix-method 
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[3823]
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[]\T1/pcr/m/n/10 coerce,pBunchKaufman,dtpMatrix-method 
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[]\T1/pcr/m/n/10 coerce,pCholesky,dtpMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,CsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,ddenseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,generalMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,ldenseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,ndenseMatrix-method 
[3824]
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[]\T1/pcr/m/n/10 coerce,vector,RsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,sparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,sparseVector-method 
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[]\T1/pcr/m/n/10 coerce,vector,TsparseMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,unpackedMatrix-method 
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[]\T1/pcr/m/n/10 coerce,vector,zsparseVector-method 
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[]\T1/pcr/m/n/10 Compare,CsparseMatrix,CsparseMatrix-method 
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[]\T1/pcr/m/n/10 Compare,lgeMatrix,lgeMatrix-method 
[3825]
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[]\T1/pcr/m/n/10 Compare,ngeMatrix,ngeMatrix-method 
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[]\T1/pcr/m/n/10 Compare,triangularMatrix,diagonalMatrix-method 
[3826] [3827]
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[]\T1/pcr/m/n/10 crossprod,ANY,sparseVector-method 
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[3828]
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[]\T1/pcr/m/n/10 qr.fitted,sparseQR,dgeMatrix-method 
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[]\T1/pcr/m/n/10 qr.qty,sparseQR,dgeMatrix-method 
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[]\T1/pcr/m/n/10 qr.resid,sparseQR,dgeMatrix-method 
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[]\T1/pcr/m/n/10 solve,Matrix,sparseVector-method 
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[]\T1/pcr/m/n/10 solve,MatrixFactorization,vector-method 
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[]\T1/pcr/m/n/10 solve,pCholesky,dgeMatrix-method 
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[]\T1/pcr/m/n/10 solve,triangularMatrix,diagonalMatrix-method 
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[]\T1/pcr/m/n/10 solve,triangularMatrix,indMatrix-method 
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[]\T1/pcr/m/n/10 solve,triangularMatrix,vector-method 
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[]\T1/pcr/m/n/10 tcrossprod,ANY,sparseVector-method 
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e/texmf-dist/fonts/map/pdftex/updmap/pdftex.map}] (./fullrefman.toc
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(/usr/share/texlive/texmf-dist/tex/latex/jknapltx/ursfs.fd) [1] [2] [3]
[4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19]
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Chapter 1.
[3] [4]
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[]\T1/ptm/m/n/10 the small-est pos-i-tive floating-point num-ber []\T1/pcr/m/n/
10 x []\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 + x != 1[]\T1/ptm/m/n/10 .
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\T1/ptm/m/n/10 It equals []\T1/pcr/m/n/10 double.base ^ ulp.digits []\T1/ptm/m/
n/10 if ei-ther []\T1/pcr/m/n/10 double.base []\T1/ptm/m/n/10 is
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\T1/ptm/m/n/10 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0; oth
-er-wise, it is []\T1/pcr/m/n/10 (double.base ^
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[]\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/pcr/m/n/10 x [
]\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It
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\T1/ptm/m/n/10 equals []\T1/pcr/m/n/10 double.base ^ double.neg.ulp.digits []\T
1/ptm/m/n/10 if []\T1/pcr/m/n/10 double.base
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[]\T1/ptm/m/n/10 is 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0
; oth-er-wise, it is []\T1/pcr/m/n/10 (double.base
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\T1/pcr/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/p
cr/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As
[5]
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[]\T1/ptm/m/n/10 the num-ber of \T1/ptm/m/it/10 bytes \T1/ptm/m/n/10 in the C [
]\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 type: a 64-bit []\T1/pcr/m/n/10 time_t 
[]\T1/ptm/m/n/10 (value
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[]\T1/pcr/m/n/10 8[]\T1/ptm/m/n/10 ) is much pre-ferred these days. Note that t
his is the type used by
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[]\T1/ptm/m/n/10 introduced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.0.0. When [][]
[]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 is
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[]\T1/pcr/m/n/10 *.exponent[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 *.min.exp[]\T1/p
tm/m/n/10 , and []\T1/pcr/m/n/10 *.max.exp[]\T1/ptm/m/n/10 , com-puted en-tirel
y anal-o-gously to their
[6]
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[]\T1/ptm/m/n/10 Note that it is le-gal for a plat-form to have a `[]\T1/pcr/m/
n/10 long double[]\T1/ptm/m/n/10 ' C type which is
Underfull \hbox (badness 6691) in paragraph at lines 255--260
\T1/ptm/m/n/10 iden-ti-cal to the `[]\T1/pcr/m/n/10 double[]\T1/ptm/m/n/10 ' ty
pe --- this hap-pens on ARM CPUs. In that case
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[][][]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 will be
 false but on ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 prior to 4.0.4,
[7]
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[][][]\T1/pcr/m/n/10 R.version[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 
Sys.info[][][] []\T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-l
ar,
[8] [9] [10]
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[]\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[]
\T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ',
[11]
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 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, v
alue = TRUE)[] 
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 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, i
gnore.case = TRUE)[] 
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 []          \T1/pcr/m/n/10 ..., check.attributes = TRUE, check.class = TRUE, g
iveErr = FALSE)[] 
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 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) 
# "absolute"[] 
[16]
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 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean 
rel.diff.=",[] 
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 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE)# "target is 
bar, current is numeric"[] 
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 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE, check.class 
= FALSE) # TRUE[] 
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 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F
ALSE) 
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[]\T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion, where \T1/phv/m/n/10 R \T1/p
tm/m/n/10 uses ``floored'' in-te-ger di-vi-sion, i.e., []\T1/pcr/m/n/10 q <- x 
%/% y :=
[26]
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\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle
 . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[27] [28] [29] [30]
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 []              \T1/pcr/m/n/10 cut.names = FALSE, col.names = names(x), fix.em
pty.names = TRUE,[] 
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[]\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more
 than 256 (or
[32] [33] [34] [35]
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 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen
t-date-and-times-in-MATLAB.html)[] 
[36]
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[]\T1/ptm/m/n/10 If [][][]\T1/pcr/m/n/10 is.object[][][](x) []\T1/ptm/m/n/10 is
 true and it has a [][][]\T1/pcr/m/n/10 class[][][] []\T1/ptm/m/n/10 for which 
an
[37] [38] [39] [40]
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 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla
ss "POSIXlt"[] 
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[]\T1/ptm/m/n/10 There are no re-stric-tions on the name given as []\T1/pcr/m/n
/10 x[]\T1/ptm/m/n/10 : it can be a non-syntactic name (see
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 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back
tick=FALSE), 
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[]\T1/pcr/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[]
[][] ver-sion of []\T1/pcr/m/n/10 balancePOSIXlt(x,
[53] [54] [55] [56]
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 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", nus), col = nus + 2, 
lwd = 1, bty="n")[] 
[57]
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 []\T1/pcr/m/n/9 plot(range(x0), c(1e-40, 1), log = "xy", xlab = "x", ylab = ""
, type = "n",[] 
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 []     \T1/pcr/m/n/9 main = "Bessel Functions  J_nu(x)  near 0\n log - log  sc
ale") ; axis(2, at=1)[] 
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 []\T1/pcr/m/n/9 plot(range(x0), 10^c(-100, 80), log = "xy", xlab = "x", ylab =
 "", type = "n",[] 
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 []     \T1/pcr/m/n/9 main = "Bessel Functions  K_nu(x)  near 0\n log - log  sc
ale") ; axis(2, at=1)[] 
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 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", paste(nus, nus + 0.5,
 sep = ", ")),[] 
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[]\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim
-ited by set-ting
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 []\T1/pcr/m/n/9 L <- as.list(E <- setNames( , c("if", "for", "while", "repeat"
, "function",[] 
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 []                                  \T1/pcr/m/n/9 "(", "{", "[",  "<-", "<<-",
 "->", "=")))[] 
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 []\T1/pcr/m/n/9 for(i in seq_along(L)) L[[i]] <- call(E[[i]]) # instead of lap
ply(E, call) ..[] 
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 []\T1/pcr/m/n/9 list_ <- function (...) \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 names<-
\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 (list(...), vapply(sys.call()[-1L], as.character
, ""))[] 
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 []\T1/pcr/m/n/9 (Tab <- noquote(sapply(list_(is.call, typeof, class, mode), \(
F) sapply(L, F))))[] 
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[]\T1/ptm/m/n/10 a char-ac-ter string giv-ing the name of a C func-tion, or an 
ob-ject
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\T1/ptm/m/n/10 of class []\T1/pcr/m/n/10 "[][]NativeSymbolInfo[][][]"[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 "[][]RegisteredNativeSymbol[][][]" []\T1/ptm/m/n/10 o
r
[73]
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 []             \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif
f")))[] 
[74]
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[]\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par
-i-son[][][] and
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 []\T1/pcr/m/n/9 cat(paste(letters, 100* 1:26), fill = TRUE, labels = paste0("{
", 1:10, "}:"))[] 
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[]\T1/ptm/m/n/10 (generalized) vec-tors or ma-tri-ces. These can be given as na
med ar-gu-
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[]\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu
e and valid
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 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna
mes (default)[] 
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 []\T1/pcr/m/n/9 as.character(list(A = "Abc", xy = c("x", "y"))) # "Abc"  "c(\"
x\", \"y\")"[] 
[83]
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c
har-ac-ter by
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[]\T1/ptm/m/n/10 When a generic func-tion []\T1/pcr/m/n/10 fun []\T1/ptm/m/n/10
 is ap-plied to an ob-ject with class at-tribute []\T1/pcr/m/n/10 c("first",
[92] [93] [94] [95] [96] [97] [98] [99]
Underfull \hbox (badness 1796) in paragraph at lines 6616--6624
[]\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i
n-tro-duc-tion see [][]$\T1/pcr/m/n/10 https : / /
[100] [101] [102]
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 []\T1/pcr/m/n/9 stopifnot(identical(as.complex(NA_real_), NA_real_ + 0i)) # ha
s always been true[] 
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 []\T1/pcr/m/n/9 NAs <- vapply(list(NA, NA_integer_, NA_real_, NA_character_, N
A_complex_),[] 
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 []\T1/pcr/m/n/9 ## The exact result of this *depends* on the platform, compile
r, math-library:[] 
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 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex
_)), is.na(Im(NA_complex_)))[] 
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[]\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class []\T1/pcr/m/n
/10 interrupt []\T1/ptm/m/n/10 that in-her-its di-rectly from class
[105]
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[]\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. 
They can be es-tab-lished us-ing
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[]\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i
s []\T1/pcr/m/n/10 interactive[]\T1/ptm/m/n/10 . This should
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 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e
ncoding"))[] 
[108]
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[]\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de
fault", "internal",
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[]\T1/pcr/m/n/10 file[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pipe[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 fifo[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 url[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 gzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bzfile[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 xzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 unz[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 ,
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[]\T1/ptm/m/n/10 It may be pos-si-ble to de-duce the cur-rent na-tive en-cod-in
g from
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[]\T1/pcr/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/pcr/m/n/10 descri
ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/pcr/m/n/10 "r" []\T1/ptm/m/n
/10 only. This
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\T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http
s : / / specifications . freedesktop .
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[]\T1/pcr/m/n/10 "X11_primary" []\T1/ptm/m/n/10 and the sec-ondary se-lec-tion 
as []\T1/pcr/m/n/10 "X11_secondary"[]\T1/ptm/m/n/10 . On most sys-
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 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE"))
; close(con)[] 
[118] [119] [120] [121] [122]
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[]\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th
e call to
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 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org")   ## this redirect
s to https://[] 
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 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng
th.out = 24)[] 
[129] [130]
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[]\T1/pcr/m/n/10 data.frame []\T1/ptm/m/n/10 con-verts each of its ar-gu-ments 
to a data frame by call-ing
Underfull \hbox (badness 1975) in paragraph at lines 8840--8850
[][][]\T1/pcr/m/n/10 as.data.frame[][][](optional = TRUE)[]\T1/ptm/m/n/10 . As 
that is a generic func-tion, meth-ods can be
[131] [132] [133]
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 []                 \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l
ength.out = 3),[] 
[134] [135] [136] [137]
Underfull \hbox (badness 10000) in paragraph at lines 9327--9339
\T1/pcr/m/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") []\T1/ptm/m
/n/10 may give []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 , and
[138] [139] [140] [141] [142] [143] [144] [145]
Underfull \hbox (badness 10000) in paragraph at lines 9893--9897
[]\T1/pcr/m/n/10 .Defunct []\T1/ptm/m/n/10 is called from de-funct func-tions. 
Func-tions should be listed in
[146]
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 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]:  --------
-------------[] 
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 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(cos, "y", {cat(" HO
!\n"); pi+2})[] 
[147]
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 []        \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "(
", "function"),[] 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 10015--10015
 []        \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh
owAttributes"),[] 
[148]
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[]\T1/pcr/m/n/10 ..deparseOpts []\T1/ptm/m/n/10 is the [][][]\T1/pcr/m/n/10 cha
racter[][][] []\T1/ptm/m/n/10 vec-tor of pos-si-ble de-pars-ing op-tions used b
y
[149]
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[]\T1/ptm/m/n/10 Surround un-eval-u-ated ex-pres-sions, but not [][][]\T1/pcr/m
/n/10 formula[][][][]\T1/ptm/m/n/10 s, with
[150] [151] [152]
Underfull \hbox (badness 1603) in paragraph at lines 10390--10393
[]\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t
er-mi-nant if
[153] [154] [155] [156] [157] [158]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 10858--10858
 []    \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0
0:01"))[] 
[159] [160] [161]
Underfull \hbox (badness 1917) in paragraph at lines 11022--11027
[]\T1/pcr/m/n/10 provideDimnames(x) []\T1/ptm/m/n/10 pro-vides []\T1/pcr/m/n/10
 dimnames []\T1/ptm/m/n/10 where ``miss-ing'', such that its re-sult has
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 []\T1/pcr/m/n/9 strd(provideDimnames(N, base= list(letters[-(1:9)], tail(LETTE
RS)))) # recycling[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11078--11078
 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling
 on both levels[] 
[162] [163]
Underfull \hbox (badness 1168) in paragraph at lines 11180--11185
[]\T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of []\
T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . Cur-rently this is only used by
[164]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11282--11282
 []\T1/pcr/m/n/9 ## From R 4.1.0 to 4.1.2, ...names() sometimes did not match n
ames(list(...));[] 
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 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()),
 names(list(...))))[] 
[165] [166]
Underfull \hbox (badness 2828) in paragraph at lines 11403--11408
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ 754-[]19
85$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
Underfull \hbox (badness 10000) in paragraph at lines 11403--11408
\T1/pcr/m/n/10 org / wiki / IEEE _ 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr
/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _
Underfull \hbox (badness 10000) in paragraph at lines 11403--11408
\T1/pcr/m/n/10 754-[]2019$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / 
en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/
pcr/m/n/10 https :
[167]
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 []     \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA
ttributes"))[] 
[168]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 11508--11508
 []\T1/pcr/m/n/9 ## Write an ASCII version of the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9
 base\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 function mean() to our temp file, ..[] 
[169]
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 []\T1/pcr/m/n/9 drop(1:3 %*% 2:4)  # scalar product - w/o drop(.), would retur
n 1x1 matrix[] 
[170]
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 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon
th.abb[5:9])) 
[171] [172] [173]
Underfull \hbox (badness 6396) in paragraph at lines 11864--11872
[]\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len
t method def-i-ni-tions for
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[]\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len
t to but faster than
[174] [175] [176]
Underfull \hbox (badness 10000) in paragraph at lines 12090--12093
[]\T1/ptm/m/n/10 Do not use []\T1/pcr/m/n/10 dyn.unload []\T1/ptm/m/n/10 on a D
LL loaded by [][][]\T1/pcr/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 : use
[177] [178] [179] [180] [181] [182]
Underfull \hbox (badness 2744) in paragraph at lines 12533--12535
[]\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma
y lead to con-fu-sion (see
[183]
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 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12
52 loc.) | ....[] 
[184] [185] [186]
Underfull \hbox (badness 5288) in paragraph at lines 12808--12810
[]\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val
ue of
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[]\T1/ptm/m/n/10 Optional. The path to Ghostscript, used by [][][]\T1/pcr/m/n/1
0 dev2bitmap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bitmap[][][] []\T1/pt
m/m/n/10 and
[187]
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[]\T1/ptm/m/n/10 The path to HTML []\T1/pcr/m/n/10 tidy[]\T1/ptm/m/n/10 . Used 
by []\T1/pcr/m/n/10 R CMD check []\T1/ptm/m/n/10 if
Underfull \hbox (badness 10000) in paragraph at lines 12893--12895
[]\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for
[188] [189] [190] [191]
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[]\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing []\T1/pc
r/m/n/10 where []\T1/ptm/m/n/10 as
Underfull \hbox (badness 5970) in paragraph at lines 13186--13188
[]\T1/pcr/m/n/10 get0(): []\T1/ptm/m/n/10 The object---as from [][][]\T1/pcr/m/
n/10 get[][][](x, *)[]\T1/ptm/m/n/10 --- if []\T1/pcr/m/n/10 exists(x, *) []\T1
/ptm/m/n/10 is true, oth-er-wise
[192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 14001--14001
 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes.   Could provide 
a constructor[] 
[203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213]
Underfull \hbox (badness 2253) in paragraph at lines 14737--14739
[]\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is
 done: see
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[]\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m
a-tion is given about the
[214] [215]
Underfull \hbox (badness 2573) in paragraph at lines 14905--14907
[]\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/pcr
/m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 R_LIBS []\T1/ptm/m/n/10 with
 []\T1/pcr/m/n/10 fsep =
[216] [217]
Underfull \hbox (badness 10000) in paragraph at lines 15066--15068
[]\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See
[218] [219]
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[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 unlink[][][][]\T1
/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 15198--15201
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][
] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
Overfull \hbox (47.58038pt too wide) in paragraph at lines 15219--15219
 []                     \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B 
as it exists already[] 
[220]
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 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode
 = "0777")[] 
[221]
Underfull \hbox (badness 10000) in paragraph at lines 15339--15342
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/
m/n/10 unlink[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 basename[][][][]\T1/
ptm/m/n/10 ,
Overfull \hbox (9.78043pt too wide) in paragraph at lines 15349--15349
 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu
rsive = TRUE)[] 
[222]
Underfull \hbox (badness 10000) in paragraph at lines 15415--15418
[]\T1/pcr/m/n/10 packageNotFoundError []\T1/ptm/m/n/10 cre-ates an er-ror con-d
i-tion ob-ject of class
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 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio
ns it is found:[] 
[223]
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 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F
ALSE, 
Underfull \hbox (badness 3965) in paragraph at lines 15493--15497
[]\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr
i-bu-tion func-tion, and in-deed,
[224] [225] [226]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15657--15657
 []       \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING) 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15658--15658
 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING)[] 
[227] [228] [229] [230]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 15900--15900
 []\T1/pcr/m/n/9 ## formals returns a pairlist. Arguments with no default have 
type symbol (aka name).[] 
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 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions.  Use it in co
mbination with[] 
[231]
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[]\T1/ptm/m/n/10 either a log-i-cal spec-i-fy-ing whether el-e-ments of a real 
or com-plex vec-
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\T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger 
penalty (see
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[]\T1/pcr/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 big.interval[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sma
ll.interval[]\T1/ptm/m/n/10 ,
[232]
Underfull \hbox (badness 6944) in paragraph at lines 16084--16087
[][][]\T1/pcr/m/n/10 formatC[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 paste
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 sprintf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p
rint[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 prettyNum[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 toString[][][][]\T1/ptm/m/n/10 ,
[233]
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 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1
0,100,1000),[] 
[234] [235]
Underfull \hbox (badness 10000) in paragraph at lines 16252--16254
[]\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 is used for ``pret-ti-fy-ing'' (p
os-si-bly for-mat-ted) num-bers, also in
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 []          \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = 
decimal.mark,[] 
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 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric
(x)),[] 
Underfull \hbox (badness 2790) in paragraph at lines 16285--16288
[]\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][]
[]\T1/pcr/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for
[236]
Underfull \hbox (badness 1024) in paragraph at lines 16316--16323
[]\T1/pcr/m/n/10 "f" []\T1/ptm/m/n/10 gives num-bers in the usual []\T1/pcr/m/n
/10 xxx.xxx []\T1/ptm/m/n/10 for-mat; []\T1/pcr/m/n/10 "e" []\T1/ptm/m/n/10 and
 []\T1/pcr/m/n/10 "E" []\T1/ptm/m/n/10 give
[237]
Underfull \hbox (badness 10000) in paragraph at lines 16392--16394
[]\T1/ptm/m/n/10 This works via []\T1/pcr/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , 
which calls []\T1/pcr/m/n/10 .format.zeros(*,
Underfull \hbox (badness 10000) in paragraph at lines 16414--16419
[]\T1/ptm/m/n/10 For num-bers, []\T1/pcr/m/n/10 formatC() []\T1/ptm/m/n/10 call
s []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 when needed which it-self calls
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[]\T1/ptm/m/n/10 If you set []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 it over-ri
des the set-ting of []\T1/pcr/m/n/10 mode[]\T1/ptm/m/n/10 , so []\T1/pcr/m/n/10
 formatC(123.45, mode =
Underfull \hbox (badness 10000) in paragraph at lines 16431--16439
[]\T1/pcr/m/n/10 prettyNum []\T1/ptm/m/n/10 is the util-ity func-tion for pret-
ti-fy-ing []\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 x []\T1/ptm/m/n
/10 can be com-plex (or
[238] [239]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 16538--16538
 []\T1/pcr/m/n/9 fc <- formatC(1.234 + 10^(0:8), format = "fg", width = 11, big
.mark = "\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ")[] 
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 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you 
want see the effect[] 
[241] [242]
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 []\T1/pcr/m/n/10 Reduce(f, x, init, right = FALSE, accumulate = FALSE, simplif
y = TRUE) 
[243] [244] [245] [246] [247] [248] [249] [250] [251] [252]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17406--17406
 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil
l a DLLInfoList[] 
[253]
Underfull \hbox (badness 2418) in paragraph at lines 17515--17519
\T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [
]\T1/pcr/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CallRoutine[]\T1/pt
m/m/n/10 ,
Underfull \hbox (badness 6510) in paragraph at lines 17522--17525
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 name []\T1/ptm/m/n/10 con-tains only one s
ym-bol name and []\T1/pcr/m/n/10 unlist []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TR
UE[]\T1/ptm/m/n/10 , then the sin-gle
[254]
Underfull \hbox (badness 2326) in paragraph at lines 17557--17564
[][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 is.loaded[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .C[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Fortran[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 .External[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Call[][][][]
\T1/ptm/m/n/10 ,
[255] [256]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17707--17707
 []\T1/pcr/m/n/9 ## Not run: ## for translation, those strings should appear in
 R-pkg.pot as[] 
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 []\T1/pcr/m/n/9 if(is.na(thisLang) || !nzchar(thisLang)) thisLang <- "en" # "f
actory" default[] 
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 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if 
translation works)[] 
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 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex
ample started:[] 
[258]
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 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F
ALSE, 
[259]
Underfull \hbox (badness 1867) in paragraph at lines 17926--17933
[]\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][]
[] (or char-ac-ter string for
[260] [261] [262] [263] [264]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18244--18244
 []  \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around 
"checking hack"[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 18273--18273
 []\T1/pcr/m/n/9 name.rex <- "(?<first>[[:upper:]][[:lower:]]+) (?<last>[[:uppe
r:]][[:lower:]]+)"[] 
Underfull \vbox (badness 10000) has occurred while \output is active [265]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 18329--18329
 []        \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F
ALSE)[] 
[266] [267] [268] [269] [270]
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 []\T1/pcr/m/n/9 (ii <- grouping(x <- c(1, 1, 3:1, 1:4, 3), y <- c(9, 9:1), z <
- c(2, 1:9))) 
[271]
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 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch
12.dat.gz"))[] 
[272] [273] [274]
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 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F
ALSE) 
[275] [276]
Underfull \hbox (badness 1360) in paragraph at lines 19141--19147
[]\T1/ptm/m/n/10 The most portable name for the ISO 8859-15 en-cod-ing, com-mon
ly known as `Latin 9',
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\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 "iso885915"[]\T1/ptm/m/n/10 : most plat-form
s sup-port both []\T1/pcr/m/n/10 "latin-9" []\T1/ptm/m/n/10 and[]\T1/pcr/m/n/10
 "latin9" []\T1/ptm/m/n/10 but GNU
[277] [278] [279]
Underfull \hbox (badness 1163) in paragraph at lines 19363--19365
[]\T1/ptm/m/n/10 The ICU user guide chap-ter on col-la-tion ([][]$\T1/pcr/m/n/1
0 https : / / unicode-[]org . github . io / icu /
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19371--19371
 []\T1/pcr/m/n/9 ## As we don\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 t know the current s
ettings, we can only reset to the default.[] 
[280]
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 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se
t = TRUE, 
[281]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 19495--19495
 []              \T1/pcr/m/n/10 num.eq = FALSE, single.NA = FALSE, attrib.as.se
t = FALSE,[] 
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 []              \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F
ALSE,[] 
[282]
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 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------
----------------[] 
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 []\T1/pcr/m/n/9 identical(f, g)                        # TRUE, as bytecode is 
ignored by default[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 19558--19558
 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share
 an environment:[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19564--19564
 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi
ng "srcref" :[] 
[283] [284]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 19691--19691
 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u
se ifelse(),[] 
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 []\T1/pcr/m/n/9 ## example of different return modes (and \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 test\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 alone determining length):[] 
[285] [286] [287]
Underfull \hbox (badness 10000) in paragraph at lines 19904--19906
[]\T1/ptm/m/n/10 how some er-rors are han-dled and re-ported, e.g. see [][][]\T
1/pcr/m/n/10 stop[][][] []\T1/ptm/m/n/10 and
[288]
Underfull \hbox (badness 2057) in paragraph at lines 20007--20033
[][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.double[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.raw[][][][]
\T1/ptm/m/n/10 ,
[289] [290] [291]
Underfull \hbox (badness 10000) in paragraph at lines 20205--20213
\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle
 . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[292] [293] [294]
Underfull \hbox (badness 4699) in paragraph at lines 20405--20408
[]\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty
pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 ,
[295] [296]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20537--20537
 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = "
GMT")[] 
[297] [298]
Underfull \hbox (badness 4739) in paragraph at lines 20672--20674
[]\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere
d, see
[299]
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 []\T1/pcr/m/n/9 isSymmetric(D3)                         # FALSE (as row and co
lumn names differ)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 20722--20722
 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE  (as names are 
not checked)[] 
[300] [301]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 20837--20837
 []\T1/pcr/m/n/10 .kappa_tri(z, exact = FALSE, LINPACK = TRUE, norm = NULL, upl
o = "U", ...)[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 20839--20839
 []\T1/pcr/m/n/10 rcond(x, norm = c("O","I","1"), triangular = FALSE, uplo = "U
", ...)[] 
[302]
Underfull \hbox (badness 2961) in paragraph at lines 20923--20926
[]\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n
etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / /
[303]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20979--20979
 []\T1/pcr/m/n/9 ## Moore-Penrose inverse { ~= MASS::ginv(); differing tol (val
ue & meaning)}:[] 
[304]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 21001--21001
 []\T1/pcr/m/n/9 try( kappa(m76, exact=TRUE, norm="1") )# error in  solve().. m
ust be square[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 21003--21003
 []\T1/pcr/m/n/9 ## ==> use pseudo-inverse instead of solve() for rectangular {
and norm != "2"}:[] 
[305] [306] [307] [308] [309] [310]
Underfull \hbox (badness 1975) in paragraph at lines 21414--21417
[]\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p
hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to
[311] [312] [313] [314] [315] [316]
Underfull \hbox (badness 1077) in paragraph at lines 21830--21835
[]\T1/ptm/m/n/10 In late 2017 a []\T1/pcr/m/n/10 libcurl []\T1/ptm/m/n/10 in-st
al-la-tion was seen di-vided into two li-braries, []\T1/pcr/m/n/10 libcurl []\T
1/ptm/m/n/10 and
Underfull \hbox (badness 10000) in paragraph at lines 21844--21851
[][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p
tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs /
[317]
Underfull \hbox (badness 1112) in paragraph at lines 21917--21926
[]\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the
 en-vi-ron-ment vari-ables []\T1/pcr/m/n/10 R_LIBS[]\T1/ptm/m/n/10 ,
[318]
Underfull \hbox (badness 2970) in paragraph at lines 21975--21978
[]\T1/pcr/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/pcr/m/n/10 C:\Us
ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a
Underfull \hbox (badness 2951) in paragraph at lines 21975--21978
\T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It 
may be opened by
[319] [320]
Underfull \hbox (badness 10000) in paragraph at lines 22088--22092
[]\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use
Underfull \hbox (badness 1454) in paragraph at lines 22088--22092
[][][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][][]\T1/ptm/m/n/10 : thi
s will sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self
Underfull \hbox (badness 1221) in paragraph at lines 22093--22100
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 is called with no
 []\T1/pcr/m/n/10 package []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 help []\T1/ptm/m
/n/10 ar-gu-ment, it lists all avail-able pack-
[321] [322]
Underfull \hbox (badness 10000) in paragraph at lines 22222--22229
[][][]\T1/pcr/m/n/10 attach[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 detach
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 search[][][][]\T1/ptm/m/n/10 , []
[][]\T1/pcr/m/n/10 objects[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 autoloa
d[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 requireNamespace[][][][]\T1/ptm/
m/n/10 ,
[323]
Underfull \hbox (badness 10000) in paragraph at lines 22343--22347
[]\T1/ptm/m/n/10 Do not use [][][]\T1/pcr/m/n/10 dyn.unload[][][] []\T1/ptm/m/n
/10 on a DLL loaded by []\T1/pcr/m/n/10 library.dynam[]\T1/ptm/m/n/10 : use
[324] [325] [326] [327]
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
[328]
Underfull \hbox (badness 3343) in paragraph at lines 22646--22650
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/
m/n/10 for many more file han-dling func-tions and
[329] [330]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 22784--22784
 []          \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments 
as for lists[] 
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 []              \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1,
 prob = 0.2))),[] 
[331] [332]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 22906--22906
 []\T1/pcr/m/n/9 ## This however annihilates all objects in .GlobalEnv with the
 same names ![] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 22909--22909
 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w
/ same name in .GlobalEnv[] 
Underfull \hbox (badness 6380) in paragraph at lines 22956--22964
[]\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways 
be sup-
[333] [334]
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[]\T1/ptm/m/n/10 Almost all the out-put rou-tines used by \T1/phv/m/n/10 R \T1/
ptm/m/n/10 it-self un-der Win-dows ig-nore the set-ting of
Overfull \hbox (4.38043pt too wide) in paragraph at lines 23101--23101
 []\T1/pcr/m/n/9 Sys.setlocale("LC_TIME", "de_DE.UTF-8")  # Linux, macOS, other
 Unix-alikes[] 
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 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # in C_TIME locale \T
S1/pcr/m/n/9 '\T1/pcr/m/n/9 cT\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 ; typically German
[] 
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 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # "standard" (still p
latform specific ?)[] 
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 []\T1/pcr/m/n/9 ## Not run: Sys.setlocale("LC_COLLATE", "C")   # turn off loca
le-specific sorting,[] 
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 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war
ning messages[] 
[335] [336] [337]
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[][][]\T1/pcr/m/n/10 raw[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logical[]
[][] []\T1/ptm/m/n/10 or `number-like' vec-tors (i.e., of types [][][]\T1/pcr/m
/n/10 double[][][] []\T1/ptm/m/n/10 (class
[338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 24143--24143
 []\T1/pcr/m/n/9 zN <- c(complex(real = NA , imaginary =  r ), complex(real =  
r , imaginary = NA ),[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 24144--24144
 []        \T1/pcr/m/n/9 complex(real =  r , imaginary = NaN), complex(real = N
aN, imaginary =  r ))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 24147--24147
 []\T1/pcr/m/n/9 zM ##--> many "NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s" (= 1) and th
e four non-NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s (3 different ones, at 7,9,10)[] 
[350] [351]
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 []\T1/pcr/m/n/9 match.arg(c("a", ""),  c("", NA, "bb", "abc"), several.ok=TRUE
) # |-->  "abc"[] 
Underfull \hbox (badness 1655) in paragraph at lines 24278--24282
[]\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion 
(also known as a `clo-sure'):
[352] [353] [354] [355]
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[]\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross \T1/ptm/m/n/10 prod-ucts, []
[][]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcro
ssprod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able.
[356] [357] [358] [359] [360] [361] [362] [363] [364]
Underfull \hbox (badness 1484) in paragraph at lines 25150--25158
[]\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less 
the OS's de-fault has been
Underfull \hbox (badness 1152) in paragraph at lines 25150--25158
\T1/ptm/m/n/10 changed to al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 http
s : / / docs . microsoft . com / en-[]gb /
[365] [366]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 25224--25224
 []      \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y =
 all,[] 
[367] [368] [369] [370] [371] [372] [373] [374]
Underfull \hbox (badness 1448) in paragraph at lines 25775--25783
[]\T1/pcr/m/n/10 anyNA(recursive = FALSE) []\T1/ptm/m/n/10 works the same way a
s []\T1/pcr/m/n/10 is.na[]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 anyNA(recursive =
[375]
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[]\T1/pcr/m/n/10 as.name []\T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter-
nally to a char-ac-ter vec-tor (so meth-ods for
[376]
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[]\T1/ptm/m/n/10 For an [][][]\T1/pcr/m/n/10 environment[][][] env[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r
e-spond-ing list,
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\T1/ptm/m/n/10 i.e., []\T1/pcr/m/n/10 names(as.list(env, all.names = TRUE)) []\
T1/ptm/m/n/10 which are also given by [][][]\T1/pcr/m/n/10 ls[][][](env,
Underfull \hbox (badness 3148) in paragraph at lines 25967--25973
\T1/pcr/m/n/10 all.names = TRUE, sorted = FALSE)[]\T1/ptm/m/n/10 . If the en-vi
-ron-ment is used as a hash ta-ble,
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Underfull \hbox (badness 2237) in paragraph at lines 26130--26132
[]\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1
0 c("bytes", "chars",
[380] [381] [382]
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[]\T1/ptm/m/n/10 optional [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 e
ven-tu-ally to be passed to []\T1/pcr/m/n/10 print()[]\T1/ptm/m/n/10 , used by
[383] [384] [385]
Underfull \hbox (badness 1521) in paragraph at lines 26547--26561
\T1/ptm/m/n/10 tion []\T1/pcr/m/n/10 GetFinalPathNameByHandle []\T1/ptm/m/n/10 
and in case of an er-ror (such as in-suf-fi-cient per-
[386] [387] [388] [389]
Underfull \hbox (badness 2197) in paragraph at lines 26863--26867
[]\T1/ptm/m/n/10 Loading a names-pace should where pos-si-ble be silent, with s
tartup mes-sages given by
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[]\T1/pcr/m/n/10 .onAttach[]\T1/ptm/m/n/10 . These mes-sages (and any es-sen-ti
al ones from []\T1/pcr/m/n/10 .onLoad[]\T1/ptm/m/n/10 ) should use
[390]
Underfull \hbox (badness 2846) in paragraph at lines 26877--26881
[]\T1/ptm/m/n/10 Uses of []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 with ar-gu-m
ent []\T1/pcr/m/n/10 help []\T1/ptm/m/n/10 to dis-play ba-sic in-for-ma-tion ab
out the pack-
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\T1/ptm/m/n/10 age should use []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 on the c
om-puted pack-age in-for-ma-tion ob-ject and pass this to
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 []\T1/pcr/m/n/10 attachNamespace(ns, pos = 2L, depends = NULL, exclude, includ
e.only) 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 26923--26923
 []              \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk
gs"))[] 
[391]
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[]\T1/pcr/m/n/10 loadNamespace []\T1/ptm/m/n/10 does not at-tach the name space
 it loads to the search path.
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[]\T1/pcr/m/n/10 attachNamespace []\T1/ptm/m/n/10 can be used to at-tach a fram
e con-tain-ing the ex-ported val-ues of a
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[]\T1/pcr/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but
 more ef-fi-cient than []\T1/pcr/m/n/10 pkg %in%
[392]
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 [] \T1/pcr/m/n/9 ## The string "foo" and the symbol \TS1/pcr/m/n/9 '\T1/pcr/m/
n/9 foo\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 can be used interchangably here:[] 
[393] [394] [395]
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[]\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 is.numeric []\T1/ptm/
m/n/10 re-turns []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 if its ar-gu-ment is of 
[][]mode[][][]
[396] [397] [398]
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\T1/ptm/m/n/10 ject as ob-tained by [][][]\T1/pcr/m/n/10 R.version[][][][]\T1/p
tm/m/n/10 . For []\T1/pcr/m/n/10 as.numeric_version []\T1/ptm/m/n/10 and
[399] [400] [401] [402] [403]
Underfull \hbox (badness 1603) in paragraph at lines 27762--27764
[]\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a
re con-verted by
[404]
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[]\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/
10 R \T1/ptm/m/n/10 starts up. Ini-
[405] [406] [407]
Underfull \hbox (badness 3271) in paragraph at lines 28117--28120
[]\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men
t vari-able
[408] [409] [410]
Underfull \hbox (badness 3138) in paragraph at lines 28425--28431
[]\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/pcr/
m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 28425--28431
\T1/ptm/m/n/10 e.g. the de-fault `[]\T1/pcr/m/n/10 "https://bioconductor.org"[]
\T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror
Underfull \hbox (badness 2088) in paragraph at lines 28425--28431
\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 "https://bioconductor.statistik.tu-dortmund.de
"[]\T1/ptm/m/n/10 '. Can be set by
Underfull \hbox (badness 1389) in paragraph at lines 28464--28466
[]\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na
l HTTP server, see
[411]
Underfull \hbox (badness 10000) in paragraph at lines 28495--28501
[]\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by
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[]\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/
m/n/10 (and in-di-rectly
Underfull \hbox (badness 1009) in paragraph at lines 28528--28531
[]\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/pcr/m/n/10 create.p
ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/pcr/m/n/10 bug.report[][][] []\T
1/ptm/m/n/10 and
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[]\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle
d -- see
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[]\T1/pcr/m/n/10 "source" []\T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN 
ma-cOS
Underfull \hbox (badness 10000) in paragraph at lines 28552--28558
\T1/ptm/m/n/10 build), []\T1/pcr/m/n/10 "mac.binary" []\T1/ptm/m/n/10 and []\T1
/pcr/m/n/10 "both" []\T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS
Underfull \hbox (badness 10000) in paragraph at lines 28552--28558
\T1/ptm/m/n/10 builds). ([]\T1/pcr/m/n/10 "mac.binary.el-capitan"[]\T1/ptm/m/n/
10 , []\T1/pcr/m/n/10 "mac.binary.mavericks"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 5091) in paragraph at lines 28552--28558
[]\T1/pcr/m/n/10 "mac.binary.leopard" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "ma
c.binary.universal" []\T1/ptm/m/n/10 are no longer
[412] [413]
Underfull \vbox (badness 10000) has occurred while \output is active [414]
[415] [416]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28933--28933
 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec,
 300X faster[] 
Underfull \vbox (badness 10000) has occurred while \output is active [417]
Underfull \hbox (badness 10000) in paragraph at lines 28946--28950
[]\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex.
y)] = FUN(X[arrayindex.x],
[418] [419]
Underfull \hbox (badness 1210) in paragraph at lines 29093--29096
[]\T1/pcr/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 str2la
ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/pcr/m/n/10 parse(tex
t=s,
[420] [421]
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 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) 
"Syntax error.")[] 
[422]
Underfull \hbox (badness 1478) in paragraph at lines 29318--29323
\T1/ptm/m/n/10 zero-length [][][]\T1/pcr/m/n/10 character[][][](0)[]\T1/ptm/m/n
/10 . Note that when []\T1/pcr/m/n/10 collapse []\T1/ptm/m/n/10 is a string,
[423]
Underfull \hbox (badness 7133) in paragraph at lines 29377--29383
[][][]\T1/pcr/m/n/10 toString[][][] []\T1/ptm/m/n/10 typ-i-cally calls []\T1/pc
r/m/n/10 paste(*, collapse=", ")[]\T1/ptm/m/n/10 . String ma-nip-u-la-tion with
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 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as
 the longest input.[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 29411--29411
 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha
t you wanted[] 
Overfull \hbox (17.87582pt too wide) in paragraph at lines 29424--29424
 []\T1/pcr/m/n/9 ## zero length arguments recycled as \TS1/cmtt/m/n/9 `\T1/pcr/
m/n/9 ""\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 -- NB: \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 {
}\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 <==> character(0)  here[] 
[424]
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 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 recycle0 = TRUE\TS1/pcr/m/n/9
 ' \T1/pcr/m/n/9 allows standard vectorized behaviour, i.e., zero-length[] 
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 []\T1/pcr/m/n/9 ##                   recycling resulting in zero-length result
 character(0):[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 29431--29431
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- not so good!") # ->  "..
 value is  -- not .."[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 29432--29432
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0=
TRUE) # -> character(0)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 29435--29435
 []\T1/pcr/m/n/9 paste("foo", {}, "bar", collapse = "|")                  # |--
>  "foo  bar"[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 29437--29437
 []\T1/pcr/m/n/9 ## If all arguments are empty (and collapse a string),   ""  r
esults always[] 
[425] [426] [427]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 29624--29624
 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow()  # same as nrow(subset(mt
cars, cyl == 4))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 29642--29642
 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so 
is not evaluated[] 
[428]
Underfull \hbox (badness 1360) in paragraph at lines 29697--29701
[]\T1/ptm/m/n/10 All other []\T1/pcr/m/n/10 type[]\T1/ptm/m/n/10 s give a warn-
ing or an er-ror; us-ing, e.g., []\T1/pcr/m/n/10 type =
[429] [430] [431] [432]
Underfull \hbox (badness 2277) in paragraph at lines 30009--30014
\T1/ptm/m/n/10 i.e., strictly in-clude the bounds of []\T1/pcr/m/n/10 x[]\T1/pt
m/m/n/10 . New from \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0, al-low-ing
[433] [434]
Underfull \hbox (badness 1701) in paragraph at lines 30125--30129
[]\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/cmtt/m/n/10 `\T1/
pcr/m/n/10 name\TS1/cmtt/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\
T1/pcr/m/n/10 get[][][](name, envir =
[435]
Underfull \hbox (badness 1796) in paragraph at lines 30193--30196
[]\T1/ptm/m/n/10 character string (or []\T1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 ) i
n-di-cat-ing [][][]\T1/pcr/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed 
out-put, see
[436] [437] [438] [439]
Underfull \hbox (badness 10000) in paragraph at lines 30404--30407
[]\T1/ptm/m/n/10 Option []\T1/pcr/m/n/10 width []\T1/ptm/m/n/10 con-trols the p
rint-ing of vec-tors, ma-tri-ces and ar-rays, and op-tion
[440]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 30475--30475
 []\T1/pcr/m/n/9 (x <- 2^seq(-8, 30, by=1/4)) # auto-prints; by default all in 
"exponential" format[] 
[441] [442] [443] [444] [445] [446] [447]
Underfull \hbox (badness 2961) in paragraph at lines 30956--30959
[]\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n
etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / /
[448] [449]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 31105--31105
 []           \T1/pcr/m/n/9 c1 = rep(c(1,0,0), 2), c2 = rep(c(0,1,0), 2), c3 = 
rep(c(0,0,1),2))[] 
[450] [451] [452] [453]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 31398--31398
 []\T1/pcr/m/n/9 (nn <- "\u0126\u0119\u1114\u022d\u2001\u03e2\u0954\u0f3f\u13d3
\u147b\u203c")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 31409--31409
 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\
U147b\U203c"[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 31415--31415
 []\T1/pcr/m/n/9 ## https://cran.r-project.org/doc/manuals/r-release/R-lang.htm
l#Literal-constants[] 
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 []\T1/pcr/m/n/9 ## nul characters (for terminating strings in C) are not allow
ed (parse errors)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [454]
[455]
Underfull \hbox (badness 7415) in paragraph at lines 31518--31524
[]\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R.v
ersion$os []\T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use
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 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu
l bottom-right note[] 
[456]
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 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind =
 NULL)[] 
[457] [458]
Underfull \hbox (badness 3713) in paragraph at lines 31731--31742
[]\T1/pcr/m/n/10 normal.kind []\T1/ptm/m/n/10 can be []\T1/pcr/m/n/10 "Kinderma
n-Ramage"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Buggy Kinderman-Ramage" []\T1/ptm
/m/n/10 (not
[459]
Underfull \hbox (badness 1248) in paragraph at lines 31883--31890
\T1/ptm/m/n/10 uni-form pseudo-random num-ber gen-er-a-tor, \T1/ptm/m/it/10 ACM
 Trans-ac-tions on Mod-el-ing and Com-puter
Underfull \hbox (badness 10000) in paragraph at lines 31883--31890
\T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 http : / / www . math . sci . hirosh
ima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS /
[460] [461]
Underfull \hbox (badness 1533) in paragraph at lines 32001--32004
[]\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca
n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the
[462] [463] [464]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 32154--32154
 []     \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m
ax", "min"))[] 
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[]\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/pcr/m/n/10 N
A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in
[465] [466]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32316--32316
 []\T1/pcr/m/n/9 rapply(X, function(x) x, how = "replace") -> X.; stopifnot(ide
ntical(X, X.))[] 
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 []\T1/pcr/m/n/9 rapply(X, deparse, control = "all") # passing extras. argument
 of deparse()[] 
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 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h
ow = "list")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32320--32320
 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32321--32321
 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character",                      h
ow = "unlist")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 32328--32328
 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
[467] [468] [469] [470] [471]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 32636--32636
 []\T1/pcr/m/n/9 ## Bit representation  [ sign | exponent | mantissa ] of doubl
e prec numbers :[] 
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 []\T1/pcr/m/n/9 bitC <- function(x) noquote(vapply(as.double(x), function(x) {
 # split one double[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 32648--32648
 []\T1/pcr/m/n/9 d2bI <- function(x) vapply(as.double(x), function(x) intToBits
(numToInts(x)), raw(64L))[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 32649--32649
 []\T1/pcr/m/n/9 d2b  <- function(x) vapply(as.double(x), function(x)          
 numToBits(x) , raw(64L))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [472]
Underfull \hbox (badness 6300) in paragraph at lines 32718--32720
[]\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr
it-ing R Ex-ten-sions' man-ual:
[473]
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[]\T1/ptm/m/n/10 Either an ob-ject whose mode will give the mode of the vec-tor
 to
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\T1/ptm/m/n/10 be read, or a char-ac-ter vec-tor of length one de-scrib-ing the
 mode:
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\T1/ptm/m/n/10 one of []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/pcr/m/
n/10 "double"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 "int"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/
10 ,
[474] [475] [476] [477] [478] [479] [480] [481]
Underfull \hbox (badness 2080) in paragraph at lines 33285--33295
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 infoRDS[]\T1/ptm/m/n/10 , an \T1/phv/m/n/
10 R \T1/ptm/m/n/10 list with el-e-ments []\T1/pcr/m/n/10 version []\T1/ptm/m/n
/10 (ver-sion num-ber, cur-rently 2 or 3),
Overfull \hbox (4.38043pt too wide) in paragraph at lines 33319--33319
 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene
d as needed.[] 
[482] [483] [484] [485] [486] [487] [488]
Underfull \hbox (badness 7558) in paragraph at lines 33841--33845
[]\T1/pcr/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 gregexpr []\T1/p
tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g.,
Underfull \hbox (badness 1968) in paragraph at lines 33851--33853
[]\T1/ptm/m/n/10 This help page is based on the TRE doc-u-men-ta-tion and the P
OSIX stan-dard, and the
[489]
Underfull \hbox (badness 10000) in paragraph at lines 33862--33864
[]\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/pcr/m/n/10 https : / / 
pubs . opengroup . org / onlinepubs /
Underfull \hbox (badness 1975) in paragraph at lines 33865--33869
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/pc
r/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/pcr/m
/n/10 https : / / www .
[490] [491] [492] [493] [494]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 34237--34237
 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3)         # length 24, 3 complete 
replications[] 
[495]
Underfull \hbox (badness 10000) in paragraph at lines 34308--34312
[][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] []
[]NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple
x_[][][]
[496] [497] [498]
Underfull \hbox (badness 2302) in paragraph at lines 34541--34544
[]\T1/pcr/m/n/10 signif []\T1/ptm/m/n/10 rounds the val-ues in its first ar-gu-
ment to the spec-i-fied num-ber of \T1/ptm/m/it/10 sig-nif-i-cant
Underfull \hbox (badness 1824) in paragraph at lines 34541--34544
\T1/ptm/m/n/10 dig-its. Hence, for []\T1/pcr/m/n/10 numeric x[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 signif(x, dig) []\T1/ptm/m/n/10 is the same as []\T1/pcr/m/n/
10 round(x, dig -
[499] [500]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 34671--34671
 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"))[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 34674--34674
 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
[501]
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 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
[502] [503] [504] [505] [506] [507]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 35129--35129
 []           \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) 
&& size <= n/2))[] 
[508] [509] [510] [511] [512] [513] [514]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 35566--35566
 []     \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul =
 FALSE)[] 
[515]
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[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 
1, it ap-plies to all fields; oth-er-wise, if
[516] [517]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 35856--35856
 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data
", sep = "\n") 
[518] [519] [520] [521]
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[]\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence []\T1/pcr/
m/n/10 1, 2, ..., length(along.with)[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 5563) in paragraph at lines 36119--36125
[]\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence []\T1/pcr/m/n/10 1, 2
, ..., length(from) []\T1/ptm/m/n/10 (as if ar-gu-ment
[522] [523] [524] [525] [526] [527] [528] [529] [530]
Underfull \hbox (badness 6094) in paragraph at lines 36705--36709
[]\T1/pcr/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in-
te-ger con-nec-tion de-scrip-tors for use
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\T1/ptm/m/n/10 with []\T1/pcr/m/n/10 getConnection[]\T1/ptm/m/n/10 , cor-re-spo
nd-ing to the row names of the ta-ble re-turned by
[531]
Underfull \hbox (badness 3826) in paragraph at lines 36796--36807
[]\T1/ptm/m/n/10 In Win-dows, com-mand line in-ter-pre-ta-tion is done by the a
p-pli-ca-tion as well as the
Underfull \hbox (badness 3492) in paragraph at lines 36796--36807
\T1/ptm/m/n/10 shell. It may de-pend on the com-piler used: Mi-crosoft's rules 
for the C run-time
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\T1/ptm/m/n/10 are given at [][]$\T1/pcr/m/n/10 https : / / learn . microsoft .
 com / en-[]us / cpp / c-[]language /
Underfull \hbox (badness 1635) in paragraph at lines 36796--36807
\T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][
]\T1/ptm/m/n/10 . It may de-pend on the
[532] [533] [534] [535] [536] [537] [538] [539]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 37348--37348
 []         \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index
.return = FALSE)[] 
[540] [541] [542] [543]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 37639--37639
 []\T1/pcr/m/n/9 sort_by.data.frame(mtcars, ~ list(am, -mpg)) |> subset(select 
= c(am, mpg))[] 
[544]
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 []              \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length 
= Inf,[] 
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 []              \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes"
, "keepNA"),[] 
[545]
Underfull \hbox (badness 4954) in paragraph at lines 37723--37729
[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/
pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T
1/ptm/m/n/10 , see also
Underfull \hbox (badness 5050) in paragraph at lines 37723--37729
[][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \
T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to
[546]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 37831--37831
 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments
 should print:)[] 
[547] [548] [549] [550] [551]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 38187--38187
 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m
/n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] 
[552]
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 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is
 being added[] 
[553] [554]
Underfull \hbox (badness 10000) in paragraph at lines 38428--38430
[][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919
799 / functions /
[555] [556] [557] [558]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 38654--38654
 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un
known") 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 38655--38655
 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile =
 FALSE)[] 
[559] [560] [561] [562]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 38985--38985
 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS
E, nowadays often three 
[563] [564]
Underfull \hbox (badness 6110) in paragraph at lines 39081--39091
[]\T1/ptm/m/n/10 A func-tion []\T1/pcr/m/n/10 .First []\T1/ptm/m/n/10 (and [][]
[]\T1/pcr/m/n/10 .Last[][][][]\T1/ptm/m/n/10 ) can be de-fined in ap-pro-pri-at
e `\T1/pcr/m/n/10 .Rprofile\T1/ptm/m/n/10 ' or
Underfull \hbox (badness 2635) in paragraph at lines 39081--39091
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' files or have been
 saved in `\T1/pcr/m/n/10 .RData\T1/ptm/m/n/10 '. If you want a dif-fer-ent
Underfull \hbox (badness 1237) in paragraph at lines 39081--39091
\T1/ptm/m/n/10 set of pack-ages than the de-fault ones when you start, in-sert 
a call to [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 in the
Underfull \hbox (badness 1231) in paragraph at lines 39081--39091
\T1/pcr/m/n/10 = character()) []\T1/ptm/m/n/10 will at-tach no ex-tra pack-ages
 on startup (only the \T1/ptm/b/n/10 base \T1/ptm/m/n/10 pack-age) (or
Underfull \hbox (badness 1112) in paragraph at lines 39081--39091
\T1/ptm/m/n/10 set []\T1/pcr/m/n/10 R_DEFAULT_PACKAGES=NULL []\T1/ptm/m/n/10 as
 an en-vi-ron-ment vari-able be-fore run-ning \T1/phv/m/n/10 R\T1/ptm/m/n/10 ).
 Us-ing
Underfull \hbox (badness 10000) in paragraph at lines 39137--39143
[]\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file
s `\T1/pcr/m/n/10 Renviron.site\T1/ptm/m/n/10 '
Underfull \hbox (badness 10000) in paragraph at lines 39137--39143
\T1/ptm/m/n/10 and `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for
 first in architecture-specific di-rec-to-ries,
Underfull \hbox (badness 1496) in paragraph at lines 39137--39143
\T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/i386/R
environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/pcr/m/n/10 .Renviron.i386\T1/ptm/m/
n/10 ' will be
[565]
Underfull \hbox (badness 1460) in paragraph at lines 39152--39159
[]\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is 
also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/Renviron\T1/pt
m/m/n/10 ' which is read
Underfull \hbox (badness 1038) in paragraph at lines 39152--39159
\T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron-
ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the
Underfull \hbox (badness 2573) in paragraph at lines 39152--39159
\T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i
n site or user en-vi-ron-ment
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 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba
ckslashes in[] 
[566] [567]
Underfull \hbox (badness 5985) in paragraph at lines 39299--39302
[]\T1/ptm/m/n/10 The de-fault han-dler stores the er-ror mes-sage in a buffer; 
it can be re-trieved by
Underfull \hbox (badness 1460) in paragraph at lines 39299--39302
[]\T1/pcr/m/n/10 geterrmessage()[]\T1/ptm/m/n/10 . It also stores a trace of th
e call stack that can be re-trieved by
[568]
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[]\T1/ptm/m/n/10 alternative to []\T1/pcr/m/n/10 exprs []\T1/ptm/m/n/10 or []\T
1/pcr/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an
[569]
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 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e
xprs = exprs))) 
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 []\T1/pcr/m/n/9 stopifnot(all.equal(pi, 3.141593),  2 < 2, (1:10 < 12), "a" < 
"b") |> try()[] 
[570]
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 []\T1/pcr/m/n/9 stopifnot(all.equal(rep(list(pi),4), list(3.1, 3.14, 3.141, 3.
1415))) |> try()[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 39497--39497
 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 '   \T1/pcr/m/n/9 {Yes, learn how to use do.c
all(substitute, ...) in a powerful manner !!}[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 39499--39499
 []\T1/pcr/m/n/9 bdy        <- do.call(substitute, list(bdy,   list(stopifnot =
 quote(warnifnot))))[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 39500--39500
 []\T1/pcr/m/n/9 bdy[[N-1]] <- do.call(substitute, list(bdy[[N-1]], list(stop =
 quote(warning))))[] 
[571]
Underfull \hbox (badness 1436) in paragraph at lines 39560--39564
[]\T1/ptm/m/n/10 integer de-ter-min-ing the []\T1/pcr/m/n/10 format()[]\T1/ptm/
m/n/10 ing of sec-onds when needed. Note
[572] [573] [574] [575] [576]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 39951--39951
 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec 
= NULL ("= 0")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 39980--39980
 []\T1/pcr/m/n/9 format(s1 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 19
78-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 day
\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ,   len =  7), "%a")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 39981--39981
 []\T1/pcr/m/n/9 format(s2 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 20
00-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 mon
th\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 12), "%b")[] 
Underfull \vbox (badness 10000) has occurred while \output is active [577]
[578]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 40093--40093
 []            \T1/pcr/m/n/10 add the string to the left of the match to the ou
tput.[] 
[579] [580] [581] [582]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 40363--40363
 []        \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p
refix)[] 
[583]
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 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll
apse = "\n")[] 
[584] [585] [586] [587] [588] [589] [590]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 40854--40854
 []\T1/pcr/m/n/9 ## In fact, you can pass vectors into several arguments, and e
verything gets added.[] 
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 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also
 missing, ....[] 
[591]
Underfull \hbox (badness 10000) in paragraph at lines 40908--40915
[]\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][][]\T1/pcr/m/n/
10 signif[][][]() []\T1/ptm/m/n/10 (for
Underfull \hbox (badness 10000) in paragraph at lines 40908--40915
[]\T1/pcr/m/n/10 summary.default[]\T1/ptm/m/n/10 ) or [][][]\T1/pcr/m/n/10 form
at[][][]() []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 summary.data.frame[]\T1/ptm/m
/n/10 ).
[592]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 40961--40961
 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau
lt precision 
[593] [594] [595] [596]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 41275--41275
 []    \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw
ise: last"),"\n")[] 
[597] [598] [599] [600]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 41485--41485
 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, 
macOS, FreeBSD:[] 
Underfull \hbox (badness 2293) in paragraph at lines 41515--41521
[]\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild
-cards in file paths. For pre-cise de-
Underfull \hbox (badness 1237) in paragraph at lines 41515--41521
\T1/ptm/m/n/10 tails of wild-cards ex-pan-sion, see your sys-tem's doc-u-men-ta
-tion on the []\T1/pcr/m/n/10 glob []\T1/ptm/m/n/10 sys-tem call.
[601]
Underfull \hbox (badness 4792) in paragraph at lines 41533--41538
[]\T1/ptm/m/n/10 If a file-name starts with []\T1/pcr/m/n/10 . []\T1/ptm/m/n/10
 this may need to be matched ex-plic-itly: for ex-am-ple
Underfull \hbox (badness 1107) in paragraph at lines 41533--41538
[]\T1/pcr/m/n/10 Sys.glob("*.RData") []\T1/ptm/m/n/10 may or may not match `\T1
/pcr/m/n/10 .RData\T1/ptm/m/n/10 ' but will not usu-ally match
[602] [603] [604] [605]
Underfull \hbox (badness 10000) in paragraph at lines 41821--41825
[]\T1/pcr/m/n/10 sys.status() []\T1/ptm/m/n/10 re-turns a list with com-po-nent
s []\T1/pcr/m/n/10 sys.calls[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sys.parents []\
T1/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 sys.call []\T1/ptm/m/n/10 re-turns a call, []\T1/pcr/m/n/10 sy
s.function []\T1/ptm/m/n/10 a func-tion def-i-ni-tion, and []\T1/pcr/m/n/10 sys
.frame []\T1/ptm/m/n/10 and
[606] [607]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 41974--41974
 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths
), keepNA=TRUE))[] 
[608]
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 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123))  # \TS1/cmtt
/m/n/9 `\T1/pcr/m/n/9 A+C\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 could also be used 
[609] [610] [611]
Underfull \hbox (badness 1082) in paragraph at lines 42199--42202
[]\T1/ptm/m/n/10 logical. If []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions
 keep their source in-clud-ing com-ments, see
Underfull \hbox (badness 10000) in paragraph at lines 42226--42228
[][][]\T1/pcr/m/n/10 source[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 lo
adNamespace[][][] []\T1/ptm/m/n/10 which is called from [][][]\T1/pcr/m/n/10 li
brary[][][](.) []\T1/ptm/m/n/10 and uses
[612] [613] [614]
Underfull \hbox (badness 1038) in paragraph at lines 42393--42396
[]\T1/ptm/m/n/10 a log-i-cal (not []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 ) in-di-c
at-ing whether mes-sages writ-ten to `\T1/pcr/m/n/10 stdout\T1/ptm/m/n/10 ' or
[615] [616] [617] [618] [619] [620]
Underfull \hbox (badness 1442) in paragraph at lines 42777--42781
\T1/ptm/m/n/10 con-sider it to be piped or redi-rected: []\T1/pcr/m/n/10 stdout
 = TRUE []\T1/ptm/m/n/10 uses a pipe whereas []\T1/pcr/m/n/10 stdout =
[621] [622] [623]
Underfull \hbox (badness 4096) in paragraph at lines 43035--43038
[]\T1/ptm/m/n/10 Use [][][]\T1/pcr/m/n/10 ftable[][][] []\T1/ptm/m/n/10 for pri
nt-ing (and more) of mul-ti-di-men-sional ta-bles. [][][]\T1/pcr/m/n/10 margin.
table[][][][]\T1/ptm/m/n/10 ,
[624] [625]
Underfull \hbox (badness 7888) in paragraph at lines 43150--43154
[]\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/pcr/m/n/10 bin []\T1/ptm/m/n/10 can
 have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/pcr/
m/n/10 length(bin) >
[626] [627] [628] [629]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 43412--43412
 []            \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1"
, "2"), c("A", "B")))),[] 
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 []            \T1/pcr/m/n/9 array(list(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 2\TS1/cm
tt/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[]
 
Overfull \hbox (55.67578pt too wide) in paragraph at lines 43416--43416
 []                 \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 4\TS1/cmtt/m/n/9 ` \T1/pcr/m
/n/9 = NULL, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 5\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 = 
NULL), dim=4, dimnames=list(as.character(2:5)))))[] 
Underfull \hbox (badness 10000) in paragraph at lines 43429--43431
[]\T1/pcr/m/n/10 removeTaskCallback []\T1/ptm/m/n/10 un-registers a func-tion t
hat was reg-is-tered ear-lier via
[630]
Underfull \hbox (badness 10000) in paragraph at lines 43509--43512
[][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [
][]$https : / / developer .
[631] [632]
Underfull \hbox (badness 3872) in paragraph at lines 43627--43630
[]\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call
-backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer .
[633]
Underfull \hbox (badness 5475) in paragraph at lines 43693--43697
[][][]\T1/pcr/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 taskCallback
Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 https : / /
[634] [635] [636] [637] [638] [639]
Underfull \hbox (badness 1655) in paragraph at lines 44114--44121
\T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[]
\T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1
/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ',
Underfull \hbox (badness 2253) in paragraph at lines 44122--44127
[]\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se
e the ex-am-ples for typ-i-cal cases. It may
Underfull \hbox (badness 1655) in paragraph at lines 44122--44127
\T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , 
some-thing like `[]\T1/pcr/m/n/10 "2023a"[]\T1/ptm/m/n/10 '. (It does on sys-te
ms us-ing
[640]
Underfull \hbox (badness 4467) in paragraph at lines 44176--44185
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-
turns the time-zone names known to the cur-rently se-
Underfull \hbox (badness 3954) in paragraph at lines 44176--44185
\T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t
he file sys-tem varies,
[641]
Underfull \hbox (badness 1337) in paragraph at lines 44273--44281
\T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de
r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 /
usr/local/etc\T1/ptm/m/n/10 ' or
Underfull \hbox (badness 10000) in paragraph at lines 44282--44285
[]\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym
-link tar-get name of
[642]
Underfull \hbox (badness 3460) in paragraph at lines 44341--44344
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][
] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / data . iana . org /
Underfull \hbox (badness 4429) in paragraph at lines 44345--44347
[][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h
tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol-
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 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET",
 "Eire", ..., but[] 
[643] [644] [645] [646] [647]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 44695--44695
 []\T1/pcr/m/n/9 trace(pt, tracer = quote(cat(sprintf("tracing pt(*, ncp = %.15
g)\n", ncp))),[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 44697--44697
 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL)  ##--> showing the ncp
 root finding:[] 
[648] [649]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 44794--44794
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 44796--44796
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
[650] [651] [652]
Underfull \hbox (badness 6542) in paragraph at lines 45070--45072
[]\T1/pcr/m/n/10 cospi(x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sinpi(x)[]\T1/ptm/
m/n/10 , and []\T1/pcr/m/n/10 tanpi(x)[]\T1/ptm/m/n/10 , com-pute []\T1/pcr/m/n
/10 cos(pi*x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sin(pi*x)[]\T1/ptm/m/n/10 , an
d
[653] [654]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 45189--45189
 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[
 \t\r\n]") 
[655]
Underfull \hbox (badness 1708) in paragraph at lines 45257--45265
[]\T1/pcr/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any
 er-rors that oc-cur dur-ing the eval-u-a-tion. If
Underfull \hbox (badness 3713) in paragraph at lines 45257--45265
\T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][
][]\T1/pcr/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less
[656]
Underfull \hbox (badness 4859) in paragraph at lines 45297--45302
[][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 for set-ting er-ror han-dle
rs and sup-press-ing the print-ing of er-ror mes-sages;
[657]
Underfull \hbox (badness 3895) in paragraph at lines 45359--45372
[]\T1/ptm/m/n/10 A char-ac-ter string. The pos-si-ble val-ues are listed in the
 struc-ture []\T1/pcr/m/n/10 TypeTable []\T1/ptm/m/n/10 in
Underfull \hbox (badness 1303) in paragraph at lines 45359--45372
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/main/util.c\T1/ptm/m/n/10 '. Cur-rent val-ue
s are the vec-tor types []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/
m/n/10 "integer"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 2452) in paragraph at lines 45359--45372
[]\T1/pcr/m/n/10 "promise"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "object"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "language"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "char"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "..."[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "a
ny"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expression"[]\T1/ptm/m/n/10 ,
[658] [659] [660] [661] [662]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 45708--45708
 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp
ression(1+x))[] 
[663] [664] [665]
Underfull \hbox (badness 1137) in paragraph at lines 45847--45854
[]\T1/ptm/m/n/10 When a func-tion call-ing []\T1/pcr/m/n/10 UseMethod("fun") []
\T1/ptm/m/n/10 is ap-plied to an ob-ject with class vec-tor
[666] [667] [668] [669] [670]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46226--46226
 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local
es and fonts[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 46235--46235
 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little-
endian platforms[] 
[671]
Underfull \hbox (badness 1721) in paragraph at lines 46297--46314
[][][]\T1/pcr/m/n/10 file.rename[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 f
ile.symlink[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 dir.create[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dir.exists[][][][]\T1/ptm/m/n/10 , [][][]\
T1/pcr/m/n/10 normalizePath[][][][]\T1/ptm/m/n/10 ,
[672]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 46399--46399
 []\T1/pcr/m/n/9 try( substr(x, 1,1) ) # gives \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 in
valid multibyte string\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 error in a UTF-8 locale[] 
[673]
Underfull \hbox (badness 1803) in paragraph at lines 46462--46465
[]\T1/ptm/m/n/10 The atomic modes are []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric" []\
T1/ptm/m/n/10 (syn-onym []\T1/pcr/m/n/10 "double"[]\T1/ptm/m/n/10 ),
Underfull \hbox (badness 3471) in paragraph at lines 46466--46472
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 mode = "any"[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 is.vector []\T1/ptm/m/n/10 may re-turn []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/
n/10 for the atomic modes, [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 and
[674] [675] [676]
Underfull \hbox (badness 1014) in paragraph at lines 46694--46697
[]\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me
-di-ately, even if
[677] [678]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 46803--46803
 []      \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes
sages:\n"),[] 
[679]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46880--46880
 []\T1/pcr/m/n/9 ## at the end prints all three warnings, from the \TS1/pcr/m/n
/9 '\T1/pcr/m/n/9 option(warn = 0)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 above[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 46888--46888
 []\T1/pcr/m/n/9 x <- 1:36; for(n in 1:13) for(m in 1:12) A <- matrix(x, n,m) #
 There were 105 warnings ...[] 
[680]
Underfull \hbox (badness 1783) in paragraph at lines 46953--46955
[]\T1/pcr/m/n/10 weekdays []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 months []\T1/pt
m/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e.,
[681]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 46983--46983
 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w
eek, yr}), ... :[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 46995--46995
 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Even simpler:  Date -> Matrix
 - dropping time info {sec,min,hour, isdst}[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 46998--46998
 []\T1/pcr/m/n/9 d2mat(seq(as.Date("2000-02-02"), by=1, length.out=30)) # has R
 1.0.0\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s release date[] 
[682]
Underfull \hbox (badness 10000) in paragraph at lines 47060--47065
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 arr.ind == TRUE []\T1/ptm/m/n/10 and []\T1
/pcr/m/n/10 x []\T1/ptm/m/n/10 is an [][][]\T1/pcr/m/n/10 array[][][] []\T1/ptm
/m/n/10 (has a [][][]\T1/pcr/m/n/10 dim[][][] []\T1/ptm/m/n/10 at-tribute), the
 re-sult is
Underfull \hbox (badness 2564) in paragraph at lines 47060--47065
[]\T1/pcr/m/n/10 arrayInd(which(x), dim(x), dimnames(x))[]\T1/ptm/m/n/10 , name
ly a ma-trix whose rows each
[683]
Underfull \hbox (badness 2818) in paragraph at lines 47158--47164
[]\T1/ptm/m/n/10 For a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 vec-
tor []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with both []\T1/pcr/m/n/10 FALSE []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 val-ues, []\T1/pcr/m/n/10
 which.min(x) []\T1/ptm/m/n/10 and
[684]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 47193--47193
 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is
 at least one:[] 
[685] [686] [687] [688] [689] [690] [691]
Underfull \hbox (badness 2846) in paragraph at lines 47688--47692
[]\T1/pcr/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren
tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas
[692]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 47728--47728
 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char
acter vector[] 
Underfull \hbox (badness 3209) in paragraph at lines 47749--47753
[]\T1/pcr/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da
rd' reg-exps, in-clud-ing el-e-ments named
[693]) (./compiler-pkg.tex [694]
Chapter 2.
[695]
Underfull \hbox (badness 2884) in paragraph at lines 107--121
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 options []\T1/ptm/m/n/10 ar-gu-ment can b
e used to con-trol com-piler op-er-a-tion. There are cur-
Underfull \hbox (badness 10000) in paragraph at lines 107--121
\T1/ptm/m/n/10 rently four op-tions: []\T1/pcr/m/n/10 optimize[]\T1/ptm/m/n/10 
, []\T1/pcr/m/n/10 suppressAll[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressUndef
ined[]\T1/ptm/m/n/10 , and
[696] [697] [698]) (./datasets-pkg.tex
Chapter 3.
[699] [700] [701] [702] [703]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 297--297
 []  \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang
e", cex = 1.2,[] 
[704]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 375--375
 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi
ven = FALSE)[] 
[705] [706] [707]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 613--613
 []           \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t
race = TRUE)[] 
[708] [709]
Underfull \hbox (badness 4779) in paragraph at lines 700--703
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[710] [711]
Underfull \hbox (badness 4779) in paragraph at lines 832--835
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[712] [713]
Underfull \hbox (badness 1097) in paragraph at lines 1034--1038
[]\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th
e iden-ti-fi-ca-tion of crim-i-nals.
[714] [715]
Underfull \hbox (badness 4779) in paragraph at lines 1149--1152
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[716] [717] [718] [719] [720]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1463--1463
 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption
 time (sec)")[] 
[721] [722]
Underfull \hbox (badness 10000) in paragraph at lines 1548--1551
[]\T1/ptm/m/n/10 Finally, []\T1/pcr/m/n/10 freeny []\T1/ptm/m/n/10 is a data fr
ame with vari-ables []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lag.q
uarterly.revenue[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 2903) in paragraph at lines 1548--1551
[]\T1/pcr/m/n/10 price.index[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 income.level[]\
T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 market.potential []\T1/ptm/m/n/10 ob-taine
d from the above
[723] [724] [725]
Underfull \hbox (badness 4779) in paragraph at lines 1737--1740
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[726]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1835--1835
 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil
y = binomial())[] 
[727]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1843--1843
 []  \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum),
 data = infert)[] 
[728]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1960--1960
 []\T1/pcr/m/n/9 ## Iris versicolor "differs twice as much from I. setosa as fr
om I. virginica"[] 
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 []\T1/pcr/m/n/9 ## equivalence of legacy array (iris3) and data.frame (iris) r
epresentation[] 
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 []                                        \T1/pcr/m/n/9 sub(" W.",".Width", dn
i3[[2]])))),[] 
[729]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1970--1970
 []    \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d
ni3[[3]]))))[] 
[730] [731] [732]
Underfull \hbox (badness 4779) in paragraph at lines 2173--2176
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[733] [734] [735] [736] [737] [738] [739] [740] [741] [742]
Underfull \hbox (badness 4779) in paragraph at lines 2738--2741
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[743] [744] [745] [746] [747] [748]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3168--3168
 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 
1.2, pch = ".")[] 
[749]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3215--3215
 []\T1/pcr/m/n/9 myrandu <- matrix(NA_real_, 400, 3, dimnames = list(NULL, c("x
","y","z")))[] 
[750] [751] [752] [753] [754]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 3521--3521
 []\T1/pcr/m/n/9 ## Alaska and Hawaii are placed just off the West Coast (for c
ompact map drawing):[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 3523--3523
 []\T1/pcr/m/n/9 ## state.center2 := version of state.center with "correct" coo
rdinates for AK & HI:[] 
Overfull \hbox (85.38034pt too wide) in paragraph at lines 3524--3524
 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis
t.html#Geographic%20Centers[] 
[755] [756]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3655--3655
 []          \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t
he monthly one:[] 
[757] [758]
Underfull \hbox (badness 4779) in paragraph at lines 3803--3806
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[759]
Overfull \vbox (10.49593pt too high) has occurred while \output is active
[760]
Overfull \vbox (15.49593pt too high) has occurred while \output is active
[761]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 4012--4012
 []       \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of
 supplement")[] 
Underfull \hbox (badness 10000) in paragraph at lines 4048--4050
[]\T1/ptm/m/n/10 For some pho-tos of Methuse-lah Walk see [][]$\T1/pcr/m/n/10 h
ttps : / / web . archive . org / web /
Underfull \hbox (badness 10000) in paragraph at lines 4048--4050
\T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma
n / sitephotos /
[762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773]
[774] [775]) (./grDevices-pkg.tex [776]
Chapter 4.
[777] [778] [779] [780]
Underfull \hbox (badness 4752) in paragraph at lines 297--302
[]\T1/ptm/m/n/10 Apart from that, [][][]\T1/pcr/m/n/10 axisTicks[][][]() []\T1/
ptm/m/n/10 just calls the C func-tion []\T1/pcr/m/n/10 CreateAtVector() []\T1/p
tm/m/n/10 in
Underfull \hbox (badness 2865) in paragraph at lines 297--302
\T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R\T1/pcr/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 
' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack
-age func-tion
[781] [782] [783] [784]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 525--525
 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d
.pdf",[] 
[785] [786] [787] [788] [789]
Underfull \hbox (badness 2245) in paragraph at lines 907--912
[]\T1/ptm/m/n/10 Hexadecimal string col-ors can be in the long hex-adec-i-mal f
orm (e.g., []\T1/pcr/m/n/10 "#rrggbb" []\T1/ptm/m/n/10 or
[790] [791]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 971--971
 []\T1/pcr/m/n/9 names(clmult) <- sapply(clmult, function(x) paste(crgb[,x[1]],
 collapse = ","))[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 978--978
 []    \T1/pcr/m/n/9 lattice::cloud(blue ~ red + green, data = as.data.frame(tc
), col = cNms)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 981--981
 []\T1/pcr/m/n/9 cNms[isC] # "white" "black" "blue" "cyan" "green" "magenta" "r
ed" "yellow"[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 988--988
 []   \T1/pcr/m/n/9 plot3d (tc, col = cNms, size = 11) # --> rotate w/ mouse; e
nlarged corners:[] 
[792] [793] [794] [795]
Underfull \hbox (badness 5175) in paragraph at lines 1227--1229
[]\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm
. The source code is in
[796] [797]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1398--1398
 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", 
scale.in = 255))[] 
[798] [799] [800] [801]
Underfull \hbox (badness 3302) in paragraph at lines 1659--1663
[]\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo
re of
Underfull \hbox (badness 10000) in paragraph at lines 1659--1663
[]\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern")
[802] [803] [804] [805] [806]
Underfull \hbox (badness 1565) in paragraph at lines 1950--1955
[]\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 dev.print []\T1/ptm/m/n/10 i
s to pro-duce and print a postscript copy. This will not
Underfull \hbox (badness 1354) in paragraph at lines 1950--1955
\T1/ptm/m/n/10 sys-tem: see [][][]\T1/pcr/m/n/10 postscript[][][] []\T1/ptm/m/n
/10 for how to set this up. Win-dows users may pre-fer to use
[807]
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 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res 
= 72,[] 
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[]\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of []\T1/pcr
/m/n/10 ghostscript[]\T1/ptm/m/n/10 , but are likely to in-
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[]\T1/pcr/m/n/10 "tiffg4"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffgray"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "tifflzw"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffp
ack"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiff12nc"[]\T1/ptm/m/n/10 , []\T1/pcr/
m/n/10 "tiff24nc"[]\T1/ptm/m/n/10 ,
[808] [809]
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[]\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the 
set-ting of
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 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac
ter())[] 
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[]\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript
 doc-u-men-ta-tion) are
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[]\T1/pcr/m/n/10 embedGlyphs() []\T1/ptm/m/n/10 is rec-om-mended for []\T1/pcr/
m/n/10 pdf() []\T1/ptm/m/n/10 files that con-tain type-set glyphs (see
[812] [813]
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[]\T1/ptm/m/n/10 are given, then it uses those in a call to []\T1/pcr/m/n/10 se
tGraphicsEventHandlers []\T1/ptm/m/n/10 to re-place
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\T1/ptm/m/n/10 any ex-ist-ing han-dlers in the cur-rent de-vice. This is for co
m-pat-i-bil-ity with pre-2.12.0
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\T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions. The cur-rent nor-mal way to set up e
vent han-dlers is to set them us-ing
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[]\T1/pcr/m/n/10 setGraphicsEventHandlers []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 
setGraphicsEventEnv []\T1/ptm/m/n/10 on one or more graph-ics
[814] [815]
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 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r"
, yaxs = "r") {[] 
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[817] [818]
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 []\T1/pcr/m/n/10 gray.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re
v = FALSE) 
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 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re
v = FALSE)[] 
[819] [820] [821] [822] [823]
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[825] [826] [827] [828]
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 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized
 = FALSE)[] 
[829]
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 []\T1/pcr/m/n/9 zapsmall(luv <- convertColor(cols, from = "sRGB", to = "Luv", 
scale.in = 255))[] 
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 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv",  to = hexcolor, scale.
out = NULL))[] 
[830] [831] [832]
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[]\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b
ased on the inter-quartile range
[833]
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 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl
e = FALSE,[] 
[834]
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 []\T1/pcr/m/n/9 (palette(gray(seq(0,.9,length.out = 25)))) # gray scales; prin
t old palette[] 
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 []\T1/pcr/m/n/9 ## Demonstrate the colors 1:8 in different palettes using a cu
stom matplot()[] 
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 []    \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:n, ylab =
 "", main=main)[] 
[835]
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 []\T1/pcr/m/n/9 palROB <- colorRampPalette(c("red", "darkorange2", "blue"), sp
ace = "Lab")[] 
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 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE,
 fixup = TRUE) 
[836]
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[]\T1/ptm/m/n/10 the type of palettes to list: []\T1/pcr/m/n/10 "qualitative"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sequential"[]\T1/ptm/m/n/10 ,
[837]
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[]\T1/ptm/m/n/10 For ex-am-ple, []\T1/pcr/m/n/10 "Dark 3" []\T1/ptm/m/n/10 work
s well for shad-ing points or lines in up to five groups,
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\T1/pcr/m/n/10 wikipedia . org / w / index . php ? title = HCL _ color _ space 
& oldid = 883465135$[][]\T1/ptm/m/n/10 .
[838]
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[840]
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[]\T1/ptm/m/n/10 as `\T1/pcr/m/n/10 "CP1250.enc"\T1/ptm/m/n/10 ' (Cen-tral Eu-r
o-pean), []\T1/pcr/m/n/10 "CP1251.enc"
[841] [842]
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\T1/ptm/m/n/10 PostScript fonts fam-i-lies of those names which are in-cluded (
or cloned) in all com-mon
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\T1/ptm/m/n/10 cod-ings (ex-cept []\T1/pcr/m/n/10 "TeXtext"[]\T1/ptm/m/n/10 ) a
gree over that range. Some en-cod-ings are su-per-sets of
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\T1/ptm/m/n/10 ISO-Latin1. How-ever, if ac-cented and spe-cial char-ac-ters do 
not come out as you ex-
[843] [844] [845]
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[]\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 family[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , [
]\T1/pcr/m/n/10 fonts[]\T1/ptm/m/n/10 ,
[846] [847] [848]pdfTeX warning (ext4): destination with the same identifier (n
ame{Rfn.symbol}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.4872 \aliasA{symbol}{plotmath}{symbol}
                                         [849] [850] [851] [852]
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[854] [855] [856]
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[]\T1/ptm/m/n/10 The TIFF spec-i-fi-ca-tion, [][]$\T1/pcr/m/n/10 https : / / ww
w . iso . org / standard / 34342 . html$[][]\T1/ptm/m/n/10 . See also
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 []\T1/pcr/m/n/9 ## Not run: dev.print(png, filename = "myplot.png", width = 10
24, height = 768)[] 
[857]
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[]\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE[]\T1/ptm/m/n/10 
, give a C in-te-ger for-mat such as
[858] [859] [860]
Underfull \hbox (badness 7344) in paragraph at lines 5744--5746
[]\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t
ion by Brian D'Urso
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[][][]\T1/pcr/m/n/10 postscriptFonts[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 Devices[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 check.options[][][]
 []\T1/ptm/m/n/10 which is called from both
[861] [862]
Underfull \hbox (badness 1552) in paragraph at lines 5883--5892
[]\T1/pcr/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Bookman"[]\T1
/ptm/m/n/10 , []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "He
lvetica"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 
,
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[]\T1/pcr/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Pal
atino" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/pc
r/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "URWBookman"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusMon"[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusSan" []\T1/ptm/m/n/10 (syn-onym []\T1/p
cr/m/n/10 "URWHelvetica"[]\T1/ptm/m/n/10 ),
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[]\T1/ptm/m/n/10 There are also map-pings for []\T1/pcr/m/n/10 "ComputerModern"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ComputerModernItalic" []\T1/ptm/m/n/10 and
[863]
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[]\T1/pcr/m/n/10 "Japan1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1HeiMin"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1GothicBBB"[]\T1/ptm/m/n/10 , and []\T1/p
cr/m/n/10 "Japan1Ryumin" []\T1/ptm/m/n/10 for
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[]\T1/pcr/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/p
cr/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu /
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[865]
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 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r
eg-tests-1c.R[] 
[866] [867]
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 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100
, ...)[] 
[868]
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[]\T1/ptm/m/n/10 Calling []\T1/pcr/m/n/10 quartz() []\T1/ptm/m/n/10 sets [][][]
\T1/pcr/m/n/10 .Device[][][] []\T1/ptm/m/n/10 to []\T1/pcr/m/n/10 "quartz" []\T
1/ptm/m/n/10 for on-screen de-vices and to
[869]
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 []  \T1/pcr/m/n/9 quartzFonts("mono")          # the list(mono = ..) sublist o
f quartzFonts()[] 
[870] [871] [872]
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\T1/ptm/m/n/10 play List", [][]$\T1/pcr/m/n/10 https : / / stattech . wordpress
 . fos . auckland . ac . nz / 2015 / 12 / 21 /
[873]
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 []\T1/pcr/m/n/9 rgb((0:15)/15, green = 0, blue = 0, names = paste("red", 0:15,
 sep = "."))[] 
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[]\T1/pcr/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r
ed/green/blue) into HSV space
[874] [875]
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[877]
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 []\T1/pcr/m/n/9 p <- persp(x, y, fxy <- outer(x,y), phi = 20, theta = 15, r = 
3, ltheta = -75,[] 
[878]
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 []\T1/pcr/m/n/9 ## now some "horizontal rays" (going from center to very left 
or very right):[] 
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 []    \T1/pcr/m/n/9 lines(trans3d(x=seq(x1, x2, by=0.5), y= -0.7, z = z, pmat 
= p, continuous = CNT),[] 
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 []\T1/pcr/m/n/9 doHor(-10,  0, z = -0.5, col = 2)  # x in [-10, 0] -- to the v
ery left : fine[] 
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 []\T1/pcr/m/n/9 doHor(-.5,  2, z = -0.52,col = 4) # x in [-0.5, 2] only {to th
e right} --> all fine[] 
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 []\T1/pcr/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro
blem (without \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 continuous=TRUE\TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 ):[] 
[879] [880]
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 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp
inch, 
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 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize 
= 12,[] 
[881] [882] [883] [884]
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[]\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/ptm/m/n/10 , []\
T1/pcr/m/n/10 record[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 rescale[]\T1/ptm/m/n/10
 ,
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[]\T1/pcr/m/n/10 xpinch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 ypinch[]\T1/ptm/m/n/
10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 canvas[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 gamma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 xpos[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 ypos[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 buffered[]\T1/
ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 restoreConsole[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 clickToConfi
rm[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 
fillOddEven []\T1/ptm/m/n/10 and
[885]
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 []\T1/pcr/m/n/9 windows()  # make sure we have the right device type (availabl
e on Windows only)[] 
[886]
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[]\T1/ptm/m/n/10 The \T1/phv/m/n/10 R \T1/ptm/m/n/10 func-tion is a wrap-per fo
r two de-vices, one based on Xlib ([][]$\T1/pcr/m/n/10 https : / /
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\T1/pcr/m/n/10 en . wikipedia . org / wiki / Xlib$[][]\T1/ptm/m/n/10 ) and one 
us-ing cairo-graph-ics ([][]$\T1/pcr/m/n/10 https : / / www .
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 []    \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol
family)[] 
[887]
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[]\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used
. One of
[888]
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[]\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ
K lan-guages and
[889]
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[]\T1/ptm/m/n/10 Problems with in-cor-rect ren-der-ing of sym-bols (e.g., of []
\T1/pcr/m/n/10 quote(pi) []\T1/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 expression(10^degree)[]\T1/ptm/m/n/10 ) have been seen on Linu
x sys-tems which have the Wine
[890]
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[]\T1/pcr/m/n/10 type = "Xlib" []\T1/ptm/m/n/10 sup-ports `True-Color', `Pseu-d
o-Color', `GrayScale', []\T1/pcr/m/n/10 StaticGray []\T1/ptm/m/n/10 and
[891]
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 []        \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height
 = 6, xpos = 0,[] 
[892] [893]
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[]\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica" []\T1
/ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10
 ,
[894] [895]
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 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp
ress the one "we know":[] 
[896]
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[]\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., []\T1/pcr/m/n/10
 number[i] []\T1/ptm/m/n/10 is the mul-ti-plic-ity of
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 []\T1/pcr/m/n/9 xy <- data.frame(x = round(sort(stats::rnorm(100))), y = stats
::rnorm(100))[] 
[897] [898]) (./graphics-pkg.tex
Chapter 5.
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[]\T1/ptm/m/n/10 For a com-plete list of func-tions with in-di-vid-ual help pag
es, use []\T1/pcr/m/n/10 library(help =
[899] [900] [901] [902] [903] [904] [905]
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 []  \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] 
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[]\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 at = NULL[]\T1/ptm/m/n/10 , pretty tick 
mark lo-ca-tions are com-puted in-ter-nally (the same way
[906] [907]
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 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t
he axis labels drawn[] 
[908]
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 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis 
= "darkgreen")[] 
[909]
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 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.POSIXct("2022-10-01 00:01:30"), col.ax
is = "orange")[] 
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 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.numeric(as.POSIXct("2022-10-01 00:00:3
0")) + 0.25,[] 
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 []                \T1/pcr/m/n/9 col.axis = "forestgreen", col = "darkgreen", m
gp = c(3,2,0))[] 
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 []\T1/pcr/m/n/9 plot(data.frame(HST, y = 1), xaxt = "n", xlab = "Hawaii Standa
rd Time (HST)")[] 
Underfull \hbox (badness 10000) in paragraph at lines 751--755
[]\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][][]\T1/pcr
/m/n/10 par[][][]("xaxp") []\T1/ptm/m/n/10 or
Underfull \hbox (badness 3250) in paragraph at lines 751--755
[][][]\T1/pcr/m/n/10 par[][][]("yaxp") []\T1/ptm/m/n/10 de-pend-ing on the []\T
1/pcr/m/n/10 side []\T1/ptm/m/n/10 ar-gu-ment ([]\T1/pcr/m/n/10 par("xaxp") []\
T1/ptm/m/n/10 if
[910] [911]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 838--838
 []                 \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n
intLog = 5))[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 875--875
 []        \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = 
NULL, ...)[] 
[912] [913]
Underfull \hbox (badness 10000) in paragraph at lines 1020--1024
[][][]\T1/pcr/m/n/10 plot[][][](..., type = "h")[]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 dotchart[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 hist[][][] []\T1
/ptm/m/n/10 for bars of a \T1/ptm/m/it/10 con-tin-u-ous \T1/ptm/m/n/10 vari-abl
e.
[914]
Overfull \hbox (133.98029pt too wide) in paragraph at lines 1037--1037
 []        \T1/pcr/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = "
# {passengers}", legend.text = TRUE)[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1039--1039
 []\T1/pcr/m/n/9 (xt <- xtabs(Freq ~ Survived + Class + Sex, d.Titanic, subset 
= Age=="Adult"))[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 1041--1041
 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur
vived, *)", color=TRUE)[] 
[915] [916] [917] [918]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1324--1324
 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. 
outside hinges"):[] 
[919] [920] [921]
Underfull \hbox (badness 2503) in paragraph at lines 1486--1495
\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 horizontal []\T1/ptm/m/n/10 is false, and 
[]\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 hor-i-zon-tally. []\T1/pcr/m/n/10 xaxt[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yaxt[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3375) in paragraph at lines 1521--1523
[]\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt
m/m/n/10 ),
[922]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1593--1593
 []\T1/pcr/m/n/9 boxplot(z,   col.axis = "skyblue3", main = "boxplot(*, col.axi
s=..,main=..)")[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1594--1594
 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main =    "plot(*, col.axi
s=..,main=..)")[] 
[923]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1600--1600
 []\T1/pcr/m/n/9 splus <- list(boxwex = 0.4, staplewex = 1, outwex = 1, boxfill
 = "grey40",[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 1601--1601
 []              \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl
ty = 1, outpch = NA)[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 1634--1634
 []  \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU
LL, ...)[] 
[924] [925] [926] [927] [928]
Underfull \hbox (badness 10000) in paragraph at lines 1907--1913
[][][]\T1/pcr/m/n/10 contourLines[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
filled.contour[][][] []\T1/ptm/m/n/10 for color-filled con-tours, [][][]\T1/pcr
/m/n/10 contourplot[][][] []\T1/ptm/m/n/10 (and
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1927--1927
 []\T1/pcr/m/n/9 contour(x, x, z, ylim = c(-6, 6), nlevels = 20, lty = 2, metho
d = "simple",[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1939--1939
 []\T1/pcr/m/n/9 contour(z, levels=levs[-c(1,length(levs))], col = 1:5, lwd = 1
:3 *1.5, lty = 1:3)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1955--1955
 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1964--1964
 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
[929] [930]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2049--2049
 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col
umns, 
[931] [932]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 2178--2178
 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given
.depth, rows = 1)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 2183--2183
 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c(
TRUE, FALSE))[] 
[933] [934]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2357--2357
 []\T1/pcr/m/n/10 dotchart(x, labels = NULL, groups = NULL, gdata = NULL, offse
t = 1/8, 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 2358--2358
 []         \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T
RUE, log = "",[] 
[935]
Underfull \hbox (badness 1430) in paragraph at lines 2388--2390
[]\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/pcr/m/n/10 
"n" []\T1/ptm/m/n/10 to sup-press and see also
[936]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 2469--2469
 []               \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO
rRd", rev = TRUE),[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 2471--2471
 []               \T1/pcr/m/n/10 plot.title, plot.axes, key.title, key.axes, ke
y.border = NULL,[] 
Underfull \hbox (badness 1009) in paragraph at lines 2481--2488
\T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n
ot ap-ply to
[937]
Underfull \hbox (badness 7273) in paragraph at lines 2564--2568
[][][]\T1/pcr/m/n/10 contour[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 image
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 hcl.colors[][][][]\T1/ptm/m/n/10 
, [][][]\T1/pcr/m/n/10 gray.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 palette[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 contourplot[][][] []\T1/p
tm/m/n/10 and
[938] [939] [940] [941]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2813--2813
 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks:  par(lab = c
(mx, my, 7))[] 
[942]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 2834--2834
 []\T1/pcr/m/n/9 plot(8:270, log="xy") ; grid() # at (1, 10, 100); if preferrin
g "all" grid lines:[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2861--2861
 []     \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = 
NULL,[] 
[943] [944]
Underfull \hbox (badness 1226) in paragraph at lines 2988--2992
\T1/pcr/m/n/10 1)[]\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies []\T1
/pcr/m/n/10 counts/n []\T1/ptm/m/n/10 and in gen-eral sat-isfy
[945]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3041--3041
 []\T1/pcr/m/n/9 ## Extreme outliers; the "FD" rule would take very large numbe
r of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 breaks\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3045--3045
 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a 
suggestion only"[] 
[946]
Underfull \hbox (badness 10000) in paragraph at lines 3107--3110
[][][]\T1/ptm/m/n/10 graphical pa-ram-e-ters[][][], or ar-gu-ments to [][][]\T1
/pcr/m/n/10 hist.default[][][] []\T1/ptm/m/n/10 such as
[947]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3158--3158
 []\T1/pcr/m/n/9 ## The default fuzz in hist.default()  "kills" this, with a "w
rong" message:[] 
[948] [949]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3322--3322
 []\T1/pcr/m/n/9 identifyPch <- function(x, y = NULL, n = length(x), plot = FAL
SE, pch = 19, ...)[] 
Overfull \hbox (79.98035pt too wide) in paragraph at lines 3327--3327
 []        \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel)
, n = 1, plot = plot, ...)[] 
[950] [951]
Underfull \hbox (badness 10000) in paragraph at lines 3469--3474
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 useRaster []\T1/ptm/m/n/10 is not spec-i-f
ied, raster im-ages are used when the
Underfull \hbox (badness 10000) in paragraph at lines 3469--3474
[][][]\T1/pcr/m/n/10 getOption[][][]("preferRaster") []\T1/ptm/m/n/10 is true, 
the grid is reg-u-lar and ei-ther
Underfull \hbox (badness 10000) in paragraph at lines 3469--3474
[][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt
m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3504--3504
 []\T1/pcr/m/n/9 # Visualize as matrix.  Need to transpose matrix and then flip
 it horizontally:[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3506--3506
 []\T1/pcr/m/n/9 imageM <- function(m, grid = max(dim(m)) <= 25, asp = (nrow(m)
-1)/(ncol(m)-1), ...) {[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3509--3509
 []        \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray
", col.axis=1, ...)[] 
[952] [953] [954]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3666--3666
 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 
0, horiz = TRUE)[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 3685--3685
 []       \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = 
par("fg"),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3689--3689
 []       \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace =
 FALSE,[] 
[955] [956] [957]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3874--3874
 []  \T1/pcr/m/n/9 text  (1, y.leg[i] - 0.1, paste("cex=", formatC(cexv[i])), c
ex = 0.8, adj = 0)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3875--3875
 []  \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce
x = cexv[i])[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3879--3879
 []       \T1/pcr/m/n/9 cex = 1+(-1:2)/8, trace = TRUE)# trace: show computed l
engths & coords[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3889--3889
 []  \T1/pcr/m/n/9 title("legend(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 top\TS1/pcr/m/n/
9 '\T1/pcr/m/n/9 , lty = c(2, -1, 1), pch = c(NA, 3, 4), merge = TRUE)",[] 
[958]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3920--3920
 []                      \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj
 = c(0, 0.3))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3946--3946
 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Filled\TS1/pcr/m/n/9 ' \T1/pc
r/m/n/9 boxes -- see also example(barplot) which may call legend(*, fill=)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3948--3948
 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow
(VADeaths)))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [959]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3959--3959
 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7
, lty = 1:7,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3974--3974
 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c
ol = "blue")[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3982--3982
 []\T1/pcr/m/n/9 legend("topleft",     "(x,y)", pch=1, title= "topleft, inset =
 .05", inset = .05)[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3984--3984
 []\T1/pcr/m/n/9 legend("topright",    "(x,y)", pch=1, title= "topright, inset 
= .02",inset = .02)[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3992--3992
 []   \T1/pcr/m/n/9 plot(1, type = "n", axes = FALSE, ann = FALSE); title(paste
("text.font =",i))[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4002--4002
 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized"
, "columns."),[] 
[960]
Underfull \hbox (badness 10000) in paragraph at lines 4064--4068
[][][]\T1/pcr/m/n/10 lines.formula[][][] []\T1/ptm/m/n/10 for the for-mula meth
od; [][][]\T1/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , par-tic-u-larly for []\
T1/pcr/m/n/10 type %in%
[961] [962]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 4176--4176
 []        \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb
ose"))[] 
[963] [964]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 4330--4330
 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le
ngth.out = 100))[] 
[965]
Underfull \hbox (badness 3930) in paragraph at lines 4409--4411
[]\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a 
mul-ti-ple of
[966] [967] [968] [969] [970]
Underfull \hbox (badness 1286) in paragraph at lines 4725--4728
[]\T1/ptm/m/n/10 which draws the ti-tle. You may want to spec-ify []\T1/pcr/m/n
/10 oma []\T1/ptm/m/n/10 when chang-ing
Underfull \hbox (badness 3229) in paragraph at lines 4733--4738
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are 
to be used, see
[971] [972]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4829--4829
 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel 
= panel.cor,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4834--4834
 []      \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma
=c(2,2,3,2))[] 
[973] [974]
Underfull \hbox (badness 1264) in paragraph at lines 5096--5109
\T1/ptm/m/n/10 func-tions such as [][][]\T1/pcr/m/n/10 plot.default[][][][]\T1/
ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.window[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lines[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 abline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 axis[][][][]\T1/ptm/m/n/10 ,
[975] [976] [977]
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[978 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//mai.pdf>]
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[979 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//oma.pdf>]
[980] [981]
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 []\T1/pcr/m/n/9 c(prof.pilots = 16, lawyers = 11, farmers = 10, salesmen = 9, 
physicians = 9,[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5673--5673
 []  \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t
eachers = 4,[] 
[982] [983] [984]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5890--5890
 []\T1/pcr/m/n/9 points(trans3d(xy[,1], xy[,2], z = 6,          pmat = res), co
l = 2, pch = 16)[] 
[985] [986] [987]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6037--6037
 []\T1/pcr/m/n/9 pie(c(Sky = 78, "Sunny side of pyramid" = 17, "Shady side of p
yramid" = 5),[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 6038--6038
 []    \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow
3"), border = FALSE)[] 
[988]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6097 \aliasA{plot}{plot.default}{plot}
                                         [989] [990] [991] [992] [993]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6427--6427
 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth)           # numeric v
ector ~ factor[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6433--6433
 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes")  # ext
remely silly[] 
[994] [995]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 6557--6557
 []               \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co
llapse = "\n")),[] 
[996] [997] [998] [999]
Underfull \hbox (badness 10000) in paragraph at lines 6862--6864
[]\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see
[1000] [1001]
Underfull \hbox (badness 1028) in paragraph at lines 6956--6958
[]\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th
is works as a mul-ti-ple of
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[][] 
[1002 </builddir/build/BUILD/R-4.4.2/library/graphics/help/figures//pch.pdf>]
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 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b
lue", cex = .6,[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 7095--7095
 []\T1/pcr/m/n/9 ## Illustration of pch = 0:25 (as in the figure shown above in
 PDF/HTML help)[] 
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 []\T1/pcr/m/n/9 ## Not run: png("pch.png", height = 0.7, width = 7, res = 100,
 units = "in")[] 
[1003]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 7120--7120
 []    \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes  =  FALSE, xlab = "", ylab =
 "", main = main)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1004]
[1005]
Underfull \hbox (badness 10000) in paragraph at lines 7242--7244
[]\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev
in Buhr
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 []  \T1/pcr/m/n/9 polygon(x, y, xpd = xpd, col = "orange", lty = 2, lwd = 2, b
order = "red")[] 
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 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats::
rnorm(n)))))[] 
[1006]
Underfull \hbox (badness 2600) in paragraph at lines 7332--7334
[]\T1/ptm/m/n/10 character value spec-i-fy-ing the path fill mode: ei-ther []\T
1/pcr/m/n/10 "winding" []\T1/ptm/m/n/10 or
[1007] [1008] [1009] [1010]
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 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7
, end = 0.1))[] 
[1011] [1012] [1013] [1014] [1015] [1016]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7951--7951
 []\T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), sp
ace = "Lab")[] 
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 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit
h obs.number):[] 
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 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0
, add = TRUE),[] 
[1017]
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 []          \T1/pcr/m/n/10 xlim = NULL, ylim = c(0, 1), axes = TRUE, weights =
 NULL, ...)[] 
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 []          \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels =
 FALSE)[] 
[1018] [1019] [1020] [1021] [1022]
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 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi
us  =  FALSE,[] 
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 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi
us  =  FALSE,[] 
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 []      \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10
, key.loc =  0:1,[] 
[1023] [1024] [1025]
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 []\T1/pcr/m/n/10 strwidth(s, units = "user", cex = NULL, font = NULL, vfont = 
NULL, ...) 
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 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont =
 NULL, ...)[] 
[1026] [1027]
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 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL,
 ...,[] 
[1028]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 number[i] == 1[]\T1/ptm/m/n/10 , a (sligh
tly en-larged) usual plot-ting sym-bol ([]\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 ) 
is drawn. For
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 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035
, seg.lwd = .8)[] 
[1029]
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 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, 
lambda = 2),[] 
[1030] [1031]
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 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll
apse = ","),[] 
[1032] [1033]
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 []     \T1/pcr/m/n/9 "Le fran�ais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est facile: 
R�gles, Libert�, Egalit�, Fraternit�...")[] 
[1034]
Underfull \hbox (badness 1215) in paragraph at lines 9109--9111
[]\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/pcr/m
/n/10 par(c("font.sub",
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[]\T1/ptm/m/n/10 The po-si-tions of []\T1/pcr/m/n/10 xlab[]\T1/ptm/m/n/10 , []\
T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sub []\T1/ptm/m/n/10 a
re []\T1/pcr/m/n/10 line []\T1/ptm/m/n/10 (de-fault for []\T1/pcr/m/n/10 xlab [
]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 be-ing
[1035]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni
ts}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9191 \HeaderA{units}{Graphical Units}{units}
                                              pdfTeX warning (ext4): destinatio
n with the same identifier (name{Rfn.units.1}) has been already used, duplicate
 ignored
<to be read again> 
                   \relax 
l.9191 \HeaderA{units}{Graphical Units}{units}
                                               [1036]
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[]\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th
e poly-gon. See
[1037] [1038]
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 []\T1/pcr/m/n/9 arrows(res$x[nr-3], res$y[nr-3], res$x[nr], res$y[nr], code = 
2, length = 0.1)[] 
[1039]) (./grid-pkg.tex [1040]
Chapter 6.
[1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050]
Underfull \hbox (badness 4859) in paragraph at lines 635--638
[]\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments
 to the
[1051] [1052] [1053] [1054] [1055] [1056]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1057] [1058] [1059]
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 []               \T1/pcr/m/n/9 vpList(vpStack(viewport(x=0.1, y=0.1, width=0.5
, height=0.5,[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1241--1241
 []                                       \T1/pcr/m/n/9 just=c("left", "bottom"
), name="B"),[] 
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 []                              \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5
, height=0.5,[] 
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 []                                       \T1/pcr/m/n/9 just=c("left", "bottom"
), name="C"),[] 
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 []                              \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5
, height=0.5,[] 
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 []                                       \T1/pcr/m/n/9 just=c("left", "bottom"
), name="D")),[] 
[1060] [1061] [1062] [1063]
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[]\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject 
de-scrib-ing a cir-cle), but only
[1064] [1065] [1066] [1067] [1068] [1069] [1070]
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 []  \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75)
, list(...)))[] 
[1071] [1072] [1073]
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.25, y=.75, gp=gpar(fill="bla
ck"), name="r1")[] 
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.5, y=.5, gp=gpar(fill="grey"
), name="r2")[] 
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 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi
te"), name="r3")[] 
[1074]
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[]\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio
ns []\T1/pcr/m/n/10 preDrawDetails[]\T1/ptm/m/n/10 ,
[1075]
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[]\T1/ptm/m/n/10 Both func-tions call []\T1/pcr/m/n/10 editDetails []\T1/ptm/m/
n/10 to al-low a grob to per-form cus-tom ac-tions and
[1076] [1077] [1078]
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[]\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de
-scrib-ing a frame), but only
[1079] [1080] [1081]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2594--2594
 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = 
FALSE)[] 
[1082]
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[]\T1/ptm/m/n/10 The jus-ti-fi-ca-tion of the glyphs rel-a-tive to the ([]\T1/p
cr/m/n/10 x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) lo-ca-tion. 
Can be
[1083]
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 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs =
 FALSE,[] 
[1084] [1085]
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 []                          \T1/pcr/m/n/9 children=gList(grob(name="child", vp
="vp1::vp2")),[] 
[1086]
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 []           \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp =
 NULL)[] 
[1087] [1088]
Underfull \hbox (badness 10000) in paragraph at lines 3103--3105
[]\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix;
 see
[1089]
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[]\T1/ptm/m/n/10 Another pos-si-ble use of []\T1/pcr/m/n/10 grid.group() []\T1/
ptm/m/n/10 is to spec-ify both []\T1/pcr/m/n/10 src []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 dst []\T1/ptm/m/n/10 and com-bine
Underfull \hbox (badness 1622) in paragraph at lines 3120--3139
[]\T1/ptm/m/n/10 is only drawn where it is NOT over-lapped by []\T1/pcr/m/n/10 
src[]\T1/ptm/m/n/10 . The fol-low-ing (ex-tended) Porter-
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[]\T1/pcr/m/n/10 "multiply"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "screen"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "overlay"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "darke
n"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lighten"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n
/10 "color.dodge"[]\T1/ptm/m/n/10 ,
[1090]
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 []  \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty
pe="luminance")[] 
[1091]
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 []  \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1
, "inches"),[] 
[1092] [1093] [1094] [1095] [1096]
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 []                                       \T1/pcr/m/n/9 children=vpList(viewpor
t(name="vp2"))))[] 
[1097] [1098]
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 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, width=0.25, height=0.25, just=
c("left", "bottom")))[] 
Underfull \hbox (badness 2799) in paragraph at lines 3756--3762
[]\T1/ptm/m/n/10 There are two hooks called []\T1/pcr/m/n/10 "before.grid.newpa
ge" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "grid.newpage" []\T1/ptm/m/n/10 (see
[1099] [1100]
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 []          \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border =
 NULL,[] 
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 []          \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border =
 NULL,[] 
[1101] [1102] [1103]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 4057--4057
 []                \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant
i-clockwise")[] 
[1104]
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 []                \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other 
anti-clockwise")[] 
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 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s
ame path, thus[] 
[1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115]
[1116]
Underfull \hbox (badness 1067) in paragraph at lines 4842--4845
[]\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec
t de-scrib-ing seg-ments), but only
[1117] [1118] [1119] [1120]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1121] [1122]
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[]\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject
s are co-erced by
[1123]
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 []\T1/pcr/m/n/9 grid.text(quote(frac(e^{-x^2/2}, sqrt(2*pi))), x=x, y=y, rot=s
tats::runif(20, -45,45),[] 
[1124] [1125] [1126] [1127] [1128] [1129]
Underfull \hbox (badness 2726) in paragraph at lines 5647--5651
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 gridCoords []\T1/ptm/m/n/10 a nu-meric ve
c-tor. For []\T1/pcr/m/n/10 gridGrobCoords []\T1/ptm/m/n/10 a list
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\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 "GridCoords" []\T1/ptm/m/n/10 ob-jects. For 
[]\T1/pcr/m/n/10 gridGTreeCoords []\T1/ptm/m/n/10 a list of ei-ther
[1130]
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[]\T1/ptm/m/n/10 Either a []\T1/pcr/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob
-ject (a list of lists with com-po-nents []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 an
d []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) or a
[1131] [1132] [1133]
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[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 grid.legend()[]\T1/ptm/m/n/10 : all the a
r-gu-ments above are passed to
[1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144]
[1145] [1146] [1147] [1148] [1149] [1150]
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 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r
ecurse=TRUE)[] 
[1151] [1152]
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 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip()
, device=TRUE) 
[1153]
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[]\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for 
use in []\T1/pcr/m/n/10 downViewport []\T1/ptm/m/n/10 or
[1154]
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[][][]\T1/pcr/m/n/10 viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 push
Viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 popViewport[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 seekViewport[][][][]\T1/ptm/m/n/10 ,
[1155] [1156] [1157]
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[1159] [1160]
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 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp
ar(col="red"))))[] 
[1161]) (./methods-pkg.tex [1162]
Chapter 7.
[1163] [1164]
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[]\T1/ptm/m/n/10 func-tion. See that doc-u-men-ta-tion also for de-tails of how
 co-erce meth-ods work. Use
[1165] [1166] [1167]
Underfull \hbox (badness 1348) in paragraph at lines 392--395
[][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in-
for-ma-tion about group generic func-tions; [][]Meth-
[1168] [1169]
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 []\T1/pcr/m/n/9 ## vector.  The next method will always be the default, usuall
y a primitive.[] 
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 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w
ith no arguments[] 
[1170]
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 []\T1/pcr/m/n/9 ## Simple examples to illustrate callNextMethod with and witho
ut arguments[] 
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 []\T1/pcr/m/n/9 ## call f() with 2 arguments: callNextMethod passes both to th
e default method[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 640--640
 []\T1/pcr/m/n/9 ## call f() with 1 argument:  the default "B0" is not passed b
y callNextMethod[] 
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 []\T1/pcr/m/n/9 ## uses the class of the *argument* to consistently select the
 "B0" method[] 
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 []\T1/pcr/m/n/9 ## Although the argument here is numeric, it\TS1/pcr/m/n/9 '\T
1/pcr/m/n/9 s still the "B0" method that\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s called[
] 
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[1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183]
[1184] [1185] [1186]
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 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N
umber" method[] 
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 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE))
) # the default[] 
[1187] [1188]
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[]\T1/ptm/m/n/10 The ar-gu-ment to []\T1/pcr/m/n/10 insertSource []\T1/ptm/m/n/
10 can be an ob-ject of class
[1189] [1190] [1191]
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[]\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age
, use []\T1/pcr/m/n/10 where =
[1192] [1193]
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[]\T1/ptm/m/n/10 To see the ac-tual ta-ble (an [][][]\T1/pcr/m/n/10 environment
[][][][]\T1/ptm/m/n/10 ) used for meth-ods dis-patch, call
[1194] [1195] [1196]
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[]\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/pcr/m/n/10 setGeneric[][][] []\
T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c
re-ate ob-jects of class
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[]\T1/ptm/m/n/10 Object of class []\T1/pcr/m/n/10 "optionalMethod" []\T1/ptm/m/
n/10 (a union of classes []\T1/pcr/m/n/10 "function" []\T1/ptm/m/n/10 and
[1197]
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 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin
g(where))[] 
[1198] [1199] [1200]
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 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers
ions visible:[] 
[1201] [1202] [1203] [1204] [1205] [1206] [1207]
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[]\T1/ptm/m/n/10 Function []\T1/pcr/m/n/10 implicitGeneric() []\T1/ptm/m/n/10 r
e-turns the im-plicit generic ver-sion,
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[]\T1/pcr/m/n/10 setGenericImplicit() []\T1/ptm/m/n/10 turns a generic im-plici
t, []\T1/pcr/m/n/10 prohibitGeneric() []\T1/ptm/m/n/10 pre-vents
[1208] [1209]
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[]\T1/ptm/m/n/10 For a class (or class def-i-ni-tion, see [][][]\T1/pcr/m/n/10 
getClass[][][] []\T1/ptm/m/n/10 and the de-scrip-tion of class
[1210]
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[]
[1211] [1212]
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[] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit
ude =
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[]\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) {
[1213]
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[]\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character")
,
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[]\T1/ptm/m/n/10 A call to [][][]\T1/pcr/m/n/10 selectSuperClasses[][][](cl) []
\T1/ptm/m/n/10 re-turns a list of su-per-classes, sim-i-larly to
[1214] [1215] [1216] [1217] [1218] [1219]
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 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char
acter(), 
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 []                        \T1/pcr/m/n/10 prototype=NULL, package, validity, ac
cess,[] 
[1220]
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 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w
here) 
[1221] [1222] [1223]
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[]\T1/ptm/m/n/10 For ad-di-tional in-for-ma-tion see doc-u-men-ta-tion for the 
im-por-tant steps: ([][][]\T1/pcr/m/n/10 setMethod[][][]()[]\T1/ptm/m/n/10 ,
[1224] [1225] [1226]
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[]\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha
t eval-u-ates a call to
[1227] [1228] [1229] [1230]
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 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate
 inheritance[] 
[1231]
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 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli
er fails here)[] 
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 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho
d for classB[] 
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[1233]
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[]\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...)
[1234] [1235]
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[]\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p
assed to
[1236] [1237] [1238]
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[]\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o
ds for this class are found (us-ing
[1239] [1240] [1241] [1242] [1243] [1244]
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[]\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 $initialize() []\T1/p
tm/m/n/10 is equiv-a-lent to in-vok-ing the method
[1245] [1246]
Underfull \hbox (badness 1248) in paragraph at lines 6343--6347
[]\T1/ptm/m/n/10 Typically, a spe-cial-ized []\T1/pcr/m/n/10 $initialize() []\T
1/ptm/m/n/10 method car-ries out its own com-pu-ta-tions,
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\T1/ptm/m/n/10 then in-vokes []\T1/pcr/m/n/10 $initFields() []\T1/ptm/m/n/10 to
 per-form stan-dard ini-tial-iza-tion, as shown in the
[1247]
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[]\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func-
tion re-turned by
[1248] [1249]
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[]\T1/ptm/m/n/10 Reference classes can have va-lid-ity meth-ods in the same sen
se as any S4 class (see
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[][][]\T1/pcr/m/n/10 setValidity[][][][]\T1/ptm/m/n/10 ). Such meth-ods are of-
ten a good idea; they will be called by call-ing
[1250]
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[1252] [1253]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.S4}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6972 \aliasA{S4}{S3Part}{S4}
                               [1254]
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 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement 
version of as().[] 
[1255] [1256]
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 []\T1/pcr/m/n/9 fit <- lm(sepal ~ Petal.Length + Petal.Width + Species, data =
 datasets::iris)[] 
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 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con
tains = "mlm")[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7228 \aliasA{Complex}{S4groupGeneric}{Complex}
                                                pdfTeX warning (ext4): destinat
ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate
 ignored
<to be read again> 
                   \relax 
l.7230 \aliasA{Logic}{S4groupGeneric}{Logic}
                                            pdfTeX warning (ext4): destination 
with the same identifier (name{Rfn.Math}) has been already used, duplicate igno
red
<to be read again> 
                   \relax 
l.7231 \aliasA{Math}{S4groupGeneric}{Math}
                                          pdfTeX warning (ext4): destination wi
th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7233 \aliasA{Ops}{S4groupGeneric}{Ops}
                                        pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor
ed
<to be read again> 
                   \relax 
l.7234 \aliasA{Summary}{S4groupGeneric}{Summary}
                                                 [1257]
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[]\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic 
can be ob-tained by call-ing
[1258]
Underfull \hbox (badness 6708) in paragraph at lines 7308--7320
[]\T1/pcr/m/n/10 "abs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sign"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "sqrt"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ceiling"[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 "floor"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trunc"
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cummax"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 2012) in paragraph at lines 7308--7320
[]\T1/pcr/m/n/10 "acosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "asin"[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 "asinh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "atan"[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 "atanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "exp"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expm1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "c
os"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "cosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cospi"[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 "sin"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sinh"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "sinpi"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tan"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanp
i"[]\T1/ptm/m/n/10 ,
[1259] [1260]
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[]\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t
ion ob-ject (see
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[]\T1/ptm/m/n/10 The typ-i-cal user level func-tion is []\T1/pcr/m/n/10 selectS
uperClasses() []\T1/ptm/m/n/10 which calls
[1261]
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 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d
itto w/o "Root"[] 
[1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272]
[1273] [1274]
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 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact
er(), 
[1275]
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 []      \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class
Def =,[] 
[1276] [1277] [1278] [1279]
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 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col
umn matrices[] 
[1280] [1281] [1282]
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 []  \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns),
 "setCount")[] 
[1283] [1284] [1285]
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 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo
rmal arguments[] 
[1286] [1287] [1288] [1289]
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 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre
es of freedom[] 
[1290]
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 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
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 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
[1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299]
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[]\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance 
in R [][]$\T1/pcr/m/n/10 https : / / johnmchambers . su .
[1300]
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[]\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., []\T1/pcr/m/n/10 "functi
on" []\T1/ptm/m/n/10 for class
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[]\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl
ass, from the data part; e.g.,
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[]\T1/pcr/m/n/10 "functionWithTrace" []\T1/ptm/m/n/10 ex-tends []\T1/pcr/m/n/10
 "function"[]\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends
[1301] [1302] [1303] [1304]) (./parallel-pkg.tex
Chapter 8.
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[]\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/p
cr/m/n/10 "L\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][]
RNG[][][]: see
[1305]
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[]\T1/ptm/m/n/10 a vec-tor for []\T1/pcr/m/n/10 clusterApply []\T1/ptm/m/n/10 a
nd []\T1/pcr/m/n/10 clusterApplyLB[]\T1/ptm/m/n/10 , a ma-trix for
[1306] [1307]
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[]\T1/ptm/m/n/10 Two ex-cep-tions: []\T1/pcr/m/n/10 parLapply []\T1/ptm/m/n/10 
has ar-gu-ment []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 not []\T1/pcr/m/n/10 x []\T1
/ptm/m/n/10 for con-sis-tency with [][][]\T1/pcr/m/n/10 lapply[][][][]\T1/ptm/m
/n/10 , and
[1308]
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[]\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, 
So-laris and Win-dows.
[1309] [1310]
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[]\T1/ptm/m/n/10 Character vec-tor of ad-di-tional ar-gu-ments for []\T1/pcr/m/
n/10 Rscript []\T1/ptm/m/n/10 such as
[1311] [1312] [1313] [1314] [1315]
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[]\T1/pcr/m/n/10 mcfork []\T1/ptm/m/n/10 re-turns an ob-ject of the class []\T1
/pcr/m/n/10 "childProcess" []\T1/ptm/m/n/10 to the mas-ter and of class
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[]\T1/pcr/m/n/10 "masterProcess" []\T1/ptm/m/n/10 to the child: both the classe
s in-herit from class []\T1/pcr/m/n/10 "process"[]\T1/ptm/m/n/10 . If
[1316]
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 []         \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini
ty.list = NULL)[] 
[1317] [1318] [1319]
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 []\T1/pcr/m/n/9 mclapply(list(A, A, A), first, mc.preschedule = FALSE, affinit
y.list = affL)[] 
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 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch
eduled to suitable CPUs[] 
[1320] [1321]
Underfull \hbox (badness 5388) in paragraph at lines 1182--1187
[]\T1/pcr/m/n/10 mcparallel []\T1/ptm/m/n/10 re-turns an ob-ject of the class [
]\T1/pcr/m/n/10 "parallelJob" []\T1/ptm/m/n/10 which in-her-its from
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[]\T1/ptm/m/n/10 The be-haviour with []\T1/pcr/m/n/10 mc.set.seed = TRUE []\T1/
ptm/m/n/10 is dif-fer-ent only if
[1322]
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 []\T1/pcr/m/n/9 mccollect(p, wait = FALSE, 10) # will retrieve the result (sin
ce it\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s fast)[] 
[1323]
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 []                 \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif
(N, 1, 28)))[] 
[1324]
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 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct,  format = 
"%Y-%m-%d")))[] 
Underfull \hbox (badness 1577) in paragraph at lines 1400--1403
[]\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/pcr/m/n/10 
.Random.seed []\T1/ptm/m/n/10 when the
[1325]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 nextRNGStream []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 nextRNGSubStream[]\T1/ptm/m/n/10 , a value which can be as-signed to
[1326] [1327]) (./splines-pkg.tex [1328]
Chapter 9.
Underfull \hbox (badness 10000) in paragraph at lines 22--24
[]\T1/ptm/m/n/10 Douglas M. Bates \T1/pcr/m/n/10 <bates@stat.wisc.edu> \T1/ptm/
m/n/10 and William N. Ven-ables
[1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 498--498
 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height,  women, bSpl
ine = TRUE))[] 
[1337]
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[]\T1/ptm/m/n/10 An in-te-ger be-tween 0 and []\T1/pcr/m/n/10 splineOrder(objec
t) - 1 []\T1/ptm/m/n/10 spec-i-fy-ing the
[1338] [1339]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 713--713
 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, 
sparse = TRUE)))[] 
[1340] [1341] [1342]) (./stats-pkg.tex
Chapter 10.
[1343]
Underfull \hbox (badness 1077) in paragraph at lines 71--74
[]\T1/pcr/m/n/10 .MFclass() []\T1/ptm/m/n/10 re-turns a char-ac-ter string, one
 of []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ordered"[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 "factor"[]\T1/ptm/m/n/10 ,
Overfull \hbox (69.18036pt too wide) in paragraph at lines 91--91
 []\T1/pcr/m/n/9 (xl <- .getXlevels(terms(mf), mf)) # a list with one entry " $
 Species" with 3 levels:[] 
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 []  \T1/pcr/m/n/9 identical(.getXlevels(terms(mc), mc), xl[0]) # a empty named
 list, as no factors[] 
[1344] [1345] [1346] [1347] [1348]
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 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea
rson Chi-square[] 
[1349]
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 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = 
FALSE) 
[1350] [1351] [1352] [1353] [1354] [1355]
Underfull \hbox (badness 1024) in paragraph at lines 901--903
[]\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/pcr/m/n/10 l
m []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for
[1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366]
[1367]
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 []          \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm 
= TRUE)[] 
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 []          \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm 
= TRUE)[] 
[1368] [1369]
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 []                 \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n
a.rm=na.)$y),[] 
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 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$y) # warning, can be avoided by
 specifying \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ties=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[
] 
[1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380]
[1381] [1382] [1383]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2822--2822
 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F
ALSE) 
[1384] [1385] [1386] [1387]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3071--3071
 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co
l = "green")[] 
[1388] [1389] [1390]
Underfull \hbox (badness 10000) in paragraph at lines 3281--3283
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo
geneity of
[1391]
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 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = 
FALSE)[] 
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 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = 
FALSE)[] 
[1392] [1393] [1394] [1395] [1396]
Package amsmath Warning: Foreign command \atopwithdelims;
(amsmath)                \frac or \genfrac should be used instead
(amsmath)                 on input line 3670.
[1397]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3736--3736
 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = "
log density",[] 
[1398] [1399] [1400] [1401]
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 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit
df = 0) 
[1402] [1403] [1404] [1405] [1406]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4304--4304
 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4305--4305
 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
[1407] [1408] [1409]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4546--4546
 []\T1/pcr/m/n/9 chisq.test(x, p = p)            #               maybe doubtful
, but is ok![] 
[1410] [1411] [1412]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4721--4721
 []  \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df =
 df, ncp = L)),[] 
[1413]
Underfull \hbox (badness 3989) in paragraph at lines 4816--4823
[]\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 
(\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/
it/10 g[] \OT1/cmr/m/n/10 =
[1414] [1415] [1416]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 5044--5044
 []\T1/pcr/m/n/10 confint(object, parm, level = 0.95, trace = FALSE, test=c("LR
T", "Rao"), ...)[] 
[1417] [1418] [1419]
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 []\T1/pcr/m/n/9 constrOptim(c(-1.2,0.9), fr, grr, ui = rbind(c(-1,0), c(0,-1))
, ci = c(-1,-1))[] 
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 []\T1/pcr/m/n/9 constrOptim(c(.5,0), fr, grr, ui = rbind(c(-1,0), c(1,-1)), ci
 = c(-0.9,0.1))[] 
[1420] [1421] [1422]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5442--5442
 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works
 with these :[] 
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 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil
ter")) 
[1423] [1424] [1425]
Underfull \hbox (badness 1436) in paragraph at lines 5670--5675
[]\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i
ng co-vari-ances
Underfull \hbox (badness 1377) in paragraph at lines 5670--5675
\T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi
-a-tion of)
Underfull \hbox (badness 1448) in paragraph at lines 5670--5675
\T1/ptm/m/n/10 one of the strings []\T1/pcr/m/n/10 "everything"[]\T1/ptm/m/n/10
 , []\T1/pcr/m/n/10 "all.obs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "complete.obs"
[]\T1/ptm/m/n/10 ,
[1426] [1427] [1428]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5871--5871
 []         \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE,
 ...)[] 
[1429] [1430] [1431]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 6038--6038
 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center =
 TRUE, 
[1432] [1433] [1434]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 6222--6222
 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter =
 NULL) 
[1435]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 6330--6330
 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en
v = parent.frame())[] 
[1436] [1437] [1438] [1439]
Underfull \hbox (badness 5954) in paragraph at lines 6593--6595
[]\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn
, see
[1440] [1441]
Underfull \hbox (badness 2503) in paragraph at lines 6674--6677
[]\T1/ptm/m/n/10 Objects of class []\T1/pcr/m/n/10 "hclust" []\T1/ptm/m/n/10 ca
n be con-verted to class []\T1/pcr/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing 
method
Underfull \hbox (badness 5563) in paragraph at lines 6678--6680
[]\T1/pcr/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g
ram []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also
Underfull \hbox (badness 1655) in paragraph at lines 6681--6686
\T1/ptm/m/n/10 has []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y [
]\T1/ptm/m/n/10 (and op-tional fur-ther ar-gu-ments) as branches. Note that be-
fore \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.1.2,
Underfull \hbox (badness 7238) in paragraph at lines 6717--6720
[][][]\T1/pcr/m/n/10 dendrapply[][][] []\T1/ptm/m/n/10 for ap-ply-ing a func-ti
on to \T1/ptm/m/it/10 each \T1/ptm/m/n/10 node. [][][]\T1/pcr/m/n/10 order.dend
rogram[][][] []\T1/ptm/m/n/10 and
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6729--6729
 []\T1/pcr/m/n/9 str(dend1, max.level = 2, last.str =  "\TS1/pcr/m/n/9 '\T1/pcr
/m/n/9 ") # only the first two sub-levels[] 
[1442]
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 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, 
type = "tr")[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6767--6767
 []\T1/pcr/m/n/9 ## merge() all parts back (using default \TS1/pcr/m/n/9 '\T1/p
cr/m/n/9 height\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 instead of original one):[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6782--6782
 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h
oriz = TRUE)[] 
[1443] [1444] [1445] [1446]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 7067--7067
 []\T1/pcr/m/n/9 abline(h = 1/1022, v = range(x), lty=2); axis(2, at=1/1022, "1
/(2n-2)", las=1)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7072--7072
 []                     \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker
n = TRUE))))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1447]
[1448] [1449]
Underfull \vbox (badness 10000) has occurred while \output is active [1450]
[1451] [1452] [1453]
Underfull \hbox (badness 10000) in paragraph at lines 7472--7476
[]\T1/pcr/m/n/10 "maximum"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "manhattan"[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 "canberra"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "bi
nary" []\T1/ptm/m/n/10 or
[1454]
Underfull \hbox (badness 6493) in paragraph at lines 7574--7577
[]\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][]
\T1/pcr/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the
[1455] [1456]
Underfull \hbox (badness 10000) in paragraph at lines 7711--7714
[]\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/pcr/m/n/10 ht
tps : / / CRAN . R-[]project . org / view =
[1457] [1458] [1459] [1460] [1461] [1462]
Underfull \hbox (badness 10000) in paragraph at lines 8123--8128
[]\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences []
\T1/pcr/m/n/10 x[t][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 x[t-1][]\T1/ptm/m/n/10 ,
 ...,
[1463] [1464] [1465] [1466] [1467] [1468]
Underfull \hbox (badness 1210) in paragraph at lines 8478--8480
[]\T1/ptm/m/n/10 Components of []\T1/pcr/m/n/10 control []\T1/ptm/m/n/10 can al
so be sup-plied as named ar-gu-ments to
[1469] [1470] [1471] [1472] [1473] [1474]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 8946--8946
 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q
uasipoisson())[] 
[1475]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 8991--8991
 []\T1/pcr/m/n/9 ## Not run: glm(y ~ x, family = quasi(variance = "mu^3", link 
= "log")) # fails[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 8994--8994
 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit
"), start = c(0,1))[] 
[1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9574--9574
 []           \T1/pcr/m/n/9 dimnames = list(income = c("< 15k", "15-25k", "25-4
0k", "> 40k"),[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 9575--9575
 []                     \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod
erateS", "VeryS")))[] 
[1484] [1485] [1486]
Underfull \hbox (badness 7291) in paragraph at lines 9755--9757
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test 
of homogeneity of
[1487] [1488] [1489] [1490] [1491] [1492] [1493]
Underfull \hbox (badness 6944) in paragraph at lines 10248--10254
[][][]\T1/pcr/m/n/10 ftable.formula[][][] []\T1/ptm/m/n/10 for the for-mula in-
ter-face (which al-lows a []\T1/pcr/m/n/10 data = . []\T1/ptm/m/n/10 ar-gu-ment
);
[1494] [1495] [1496]
Underfull \hbox (badness 3758) in paragraph at lines 10462--10465
[]\T1/ptm/m/n/10 See also [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Incomplete _ gamma _ function$[][]\T1/ptm/m/n/10 , or
[1497] [1498] [1499] [1500]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 10707--10707
 []    \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL
, ...)[] 
Underfull \hbox (badness 4518) in paragraph at lines 10733--10738
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1501]
Underfull \hbox (badness 4132) in paragraph at lines 10772--10776
[]\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth
od
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[]\T1/ptm/m/n/10 A spec-i-fi-ca-tion of the form []\T1/pcr/m/n/10 first:second 
[]\T1/ptm/m/n/10 in-di-cates the set of terms ob-tained by tak-
[1502]
Underfull \hbox (badness 10000) in paragraph at lines 10878--10881
[]\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][][]\T1/pcr/m/n/10 coeffic
ients[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 effects[]\T1/ptm/m/n/10 , []\T1/
pcr/m/n/10 fitted.values []\T1/ptm/m/n/10 and
[1503] [1504] [1505]
Underfull \hbox (badness 2142) in paragraph at lines 11095--11098
[]\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p
tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1
0 dev \OMS/cmsy/m/n/10 ^^@
[1506]
Underfull \hbox (badness 1708) in paragraph at lines 11176--11180
[]\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter-
na-tives are:
[1507]
Underfull \hbox (badness 10000) in paragraph at lines 11218--11224
[][][]\T1/pcr/m/n/10 glm[][][] []\T1/ptm/m/n/10 for com-put-ing []\T1/pcr/m/n/1
0 glm.obj[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 anova.glm[][][][]\T1/ptm/m/n/1
0 ; the cor-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions,
Underfull \hbox (badness 1418) in paragraph at lines 11256--11261
[]\T1/pcr/m/n/10 "average" []\T1/ptm/m/n/10 (= UP-GMA), []\T1/pcr/m/n/10 "mcqui
tty" []\T1/ptm/m/n/10 (= WPGMA), []\T1/pcr/m/n/10 "median" []\T1/ptm/m/n/10 (=
[1508] [1509]
Underfull \hbox (badness 2635) in paragraph at lines 11389--11392
\T1/ptm/m/n/10 There are [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/n/10 , [][
][]\T1/pcr/m/n/10 plot[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 identify []\
T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 identify.hclust[][][][]\T1/ptm/m/n/10 )
 meth-ods and the
[1510] [1511] [1512]
Underfull \hbox (badness 1694) in paragraph at lines 11572--11575
[]\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these 
de-fault to
[1513]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11668--11668
 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col
SideColors = cc,[] 
[1514]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 11701--11701
 []            \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 
0.1),[] 
Underfull \hbox (badness 10000) in paragraph at lines 11714--11718
[]\T1/ptm/m/n/10 Character string to se-lect an []\T1/pcr/m/n/10 "additive" []\
T1/ptm/m/n/10 (the de-fault) or
[1515] [1516] [1517] [1518] [1519]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12038--12038
 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4)
, DEV.FUN = nD)[] 
[1520]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.12053 \aliasA{hat}{influence.measures}{hat}
                                             
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12116--12116
 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA
LSE),[] 
[1521]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12128--12128
 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE),
 ...)[] 
Underfull \hbox (badness 1062) in paragraph at lines 12181--12186
[]\T1/ptm/m/n/10 The op-tional []\T1/pcr/m/n/10 infl[]\T1/ptm/m/n/10 , []\T1/pc
r/m/n/10 res []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sd []\T1/ptm/m/n/10 ar-gu-me
nts are there to en-cour-age the use of these di-
Underfull \hbox (badness 1052) in paragraph at lines 12198--12200
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists 
mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing
[1522] [1523] [1524] [1525]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12453--12453
 []                 \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = 
TRUE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12454--12454
 []                 \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact
or)),[] 
[1526] [1527] [1528] [1529] [1530] [1531]
Underfull \hbox (badness 10000) in paragraph at lines 12785--12787
[]\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/pcr/m/n/10 solve.de
fault[][][] []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 SSinit =
Underfull \hbox (badness 4739) in paragraph at lines 12808--12810
[]\T1/ptm/m/n/10 the es-ti-mate at time $\OML/cmm/m/it/10 t \OMS/cmsy/m/n/10 ^^
@ \OT1/cmr/m/n/10 1$ \T1/ptm/m/n/10 of the state un-cer-tainty ma-trix $\OML/cm
m/m/it/10 Q$ \T1/ptm/m/n/10 (not up-dated by
[1532] [1533] [1534] [1535] [1536]
Underfull \hbox (badness 3417) in paragraph at lines 13121--13123
[]\T1/ptm/m/n/10 an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of class []\T1/pcr/
m/n/10 "kmeans"[]\T1/ptm/m/n/10 , typ-i-cally the re-sult []\T1/pcr/m/n/10 ob [
]\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 ob <-
Underfull \hbox (badness 2894) in paragraph at lines 13127--13131
[]\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f
ault method
Underfull \hbox (badness 1038) in paragraph at lines 13127--13131
\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 "Hartigan-Wong"[]\T1/ptm/m/n/10 ): if pos-i-ti
ve (or true), trac-ing in-for-ma-tion on the
[1537] [1538] [1539] [1540] [1541] [1542]
Underfull \hbox (badness 1496) in paragraph at lines 13555--13561
[]\T1/ptm/m/n/10 Gunar Schr�er and Di-et-rich Tren-kler (1995). Ex-act and Ran-
dom-iza-tion Dis-tri-bu-tions of
[1543] [1544] [1545] [1546]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13810--13810
 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c
ol = "gold")[] 
[1547]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13910--13910
 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep
t", "slope"))[] 
[1548]
Underfull \hbox (badness 4518) in paragraph at lines 13958--13963
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1549] [1550] [1551]
Underfull \hbox (badness 10000) in paragraph at lines 14158--14162
[]\T1/ptm/m/n/10 More []\T1/pcr/m/n/10 lm() []\T1/ptm/m/n/10 ex-am-ples are ava
il-able e.g., in [][][]\T1/pcr/m/n/10 anscombe[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 attitude[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 freeny[][][]
[]\T1/ptm/m/n/10 ,
[1552] [1553] [1554] [1555] [1556]
Underfull \hbox (badness 1163) in paragraph at lines 14500--14508
\T1/ptm/m/n/10 els, [][][]\T1/pcr/m/n/10 influence[][][] []\T1/ptm/m/n/10 (etc 
on that page) for re-gres-sion di-ag-nos-tics, [][][]\T1/pcr/m/n/10 weighted.re
siduals[][][][]\T1/ptm/m/n/10 ,
[1557] [1558]
Underfull \hbox (badness 4518) in paragraph at lines 14620--14625
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1559] [1560]
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 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
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 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1561] [1562] [1563] [1564] [1565]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15154--15154
 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
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 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
[1566] [1567]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 15248--15248
 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra
nge(x))) 
[1568] [1569] [1570] [1571] [1572] [1573]
Underfull \hbox (badness 2726) in paragraph at lines 15657--15660
[]\T1/ptm/m/n/10 character; one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , [
]\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cauchit"[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 "cloglog"[]\T1/ptm/m/n/10 ,
[1574]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15751--15751
 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i
n R <= 3.5.0[] 
[1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584]
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 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc
gp, data = esoph) 
[1585] [1586]
Underfull \hbox (badness 1490) in paragraph at lines 16530--16535
\T1/ptm/m/n/10 those spec-i-fied in []\T1/pcr/m/n/10 ... []\T1/ptm/m/n/10 which
 are re-cy-cled to the num-ber of data frame rows. Un-like
[1587]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 16566--16566
 []\T1/pcr/m/n/9 model.frame(dist ~ speed, data = cars, subset = speed < 10, z 
= log(dist))[] 
Underfull \hbox (badness 1648) in paragraph at lines 16602--16604
[]\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][
][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject,
[1588]
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 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum"
, b = contr.poly))[] 
[1589]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 16688--16688
 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con
tr.helmert"))[] 
[1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17243--17243
 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3))  # does not affect objects
 with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] 
[1598] [1599] [1600]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17476--17476
 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, 
s, prob = 0.4)),[] 
[1601] [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610]
Underfull \vbox (badness 10000) has occurred while \output is active [1611]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 18196--18196
 []\T1/pcr/m/n/9 ## adjusting the convergence test by adding \TS1/pcr/m/n/9 '\T
1/pcr/m/n/9 scaleOffset\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 to its denominator RSS:[]
 
Underfull \vbox (badness 10000) has occurred while \output is active [1612]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 18215--18215
 []\T1/pcr/m/n/9 ## Here, requiring close convergence, must use more accurate n
umerical differentiation,[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 18216--18216
 []\T1/pcr/m/n/9 ## as this typically gives Error: "step factor .. reduced belo
w \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 minFactor\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 .."[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 18220--18220
 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co
nverging on *some*):[] 
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 []\T1/pcr/m/n/9 ctr2 <- nls.control(nDcentral=TRUE, tol = 8e-8, # <- even smal
ler than above[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 18224--18224
 []        \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl
("^NixOS", osVersion)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18256--18256
 []              \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21
), th = b[1]))[] 
[1613] [1614] [1615]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18432--18432
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi
ty), DNase.2)[] 
[1616]
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 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18526--18526
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
[1617] [1618] [1619] [1620]
Overfull \hbox (102.78088pt too wide) in paragraph at lines 18743--18743
 []             \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els
e 2), central = FALSE)[] 
[1621] [1622] [1623] [1624] [1625]
Underfull \hbox (badness 1248) in paragraph at lines 19062--19065
[]\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma
-tion to the gra-di-ent, on
Underfull \hbox (badness 1661) in paragraph at lines 19075--19079
[]\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i
t is un-able to re-duce
Underfull \hbox (badness 1478) in paragraph at lines 19083--19087
\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 control$trace []\T1/ptm/m/n/10 is pos-i-tive
. De-faults to ev-ery 10 it-er-a-tions for []\T1/pcr/m/n/10 "BFGS" []\T1/ptm/m/
n/10 and
[1626]
Underfull \hbox (badness 2042) in paragraph at lines 19141--19143
[]\T1/ptm/m/n/10 indicates an er-ror from the []\T1/pcr/m/n/10 "L-BFGS-B" []\T1
/ptm/m/n/10 method; see com-po-nent
[1627]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 19247--19247
 []      \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no
t* at boundary[] 
[1628]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19290--19290
 []     \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", 
axes = FALSE)[] 
Overfull \hbox (123.1803pt too wide) in paragraph at lines 19308--19308
 []\T1/pcr/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b
ut NM may be ok and "unavoidable",[] 
Overfull \hbox (96.18033pt too wide) in paragraph at lines 19311--19311
 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list(
warn.1d.NelderMead = FALSE)))[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 19331--19331
 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max
(interval), 
[1629]
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 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max
(interval),[] 
Underfull \hbox (badness 2564) in paragraph at lines 19369--19380
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 f []\T1/ptm/m/n/10 is never eva
l-u-ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m
/n/10 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/
10 tol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1082) in paragraph at lines 19369--19380
\T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately 
[]\T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) []\T1/ptm/m/n/10 and $\OML
/cmm/m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa
[1630]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19432--19432
 []\T1/pcr/m/n/9 f  <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 
1)), 10), 10)[] 
[1631] [1632] [1633]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19662--19662
 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 
1, lty = 1:6,[] 
[1634] [1635]
Underfull \hbox (badness 1337) in paragraph at lines 19773--19776
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1636] [1637] [1638] [1639] [1640]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20091--20091
 []      \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 
1.5),[] 
[1641] [1642]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 20178--20178
 []       \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s dist
 vs Leverage* " * h[ii] / (1 - h[ii]))),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 20180--20180
 []              \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else 
points,[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 20182--20182
 []     \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact
ive(),[] 
[1643]
Underfull \hbox (badness 10000) in paragraph at lines 20242--20248
\T1/pcr/m/n/10 "bottomleft", legend = "Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s di
stance", lty = cook.lty,
Underfull \hbox (badness 10000) in paragraph at lines 20242--20248
\T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp
Underfull \hbox (badness 10000) in paragraph at lines 20250--20256
[]\T1/ptm/m/n/10 the num-ber of ro-bust-ness it-er-a-tions, the ar-gu-ment []\T
1/pcr/m/n/10 iter []\T1/ptm/m/n/10 in
Underfull \hbox (badness 10000) in paragraph at lines 20261--20264
[]\T1/ptm/m/n/10 a nu-meric vec-tor of length 1 or 2, to be used in []\T1/pcr/m
/n/10 ylim <-
[1644] [1645] [1646] [1647]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 20528--20528
 []\T1/pcr/m/n/9 nlmod <- nls(y ~  Const + A * exp(B * x), start=list(Const=100
, A=10, B=1))[] 
[1648] [1649]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20659--20659
 []                    \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3,
 ...)[] 
[1650]
Underfull \hbox (badness 1194) in paragraph at lines 20669--20672
[]\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting
 of the con-fi-dence
[1651]
Underfull \hbox (badness 1107) in paragraph at lines 20727--20729
[]\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate []
\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . De-faults to
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20782--20782
 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange
") # all colors[] 
[1652]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 20789--20789
 []\T1/pcr/m/n/9 legend(2.5, 1.9, paste("f =", c(0, 0.2, 1)), col = 1:3, lty = 
1, y.intersp = 1)[] 
[1653]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20883--20883
 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma
r..., oma...)")[] 
[1654] [1655]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 21011--21011
 []    \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE)  # no 
cancellation[] 
[1656]
Underfull \hbox (badness 7740) in paragraph at lines 21074--21076
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Exact Poisson test" [
]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 "Comparison of
[1657]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 21122--21122
 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = 
FALSE) 
Underfull \hbox (badness 10000) in paragraph at lines 21178--21180
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 poly(*, simple=TRUE)[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 polym(*, coefs=<non-NULL>)[]\T1/ptm/m/n/10 , and
[1658]
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 [] \T1/pcr/m/n/9 zm <- zapsmall(polym (    1:4, c(1, 4:6),  degree = 3)) # or 
just poly():[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 21220--21220
 []\T1/pcr/m/n/9 ## poly(<matrix>, df) --- used to fail till July 14 (vive la F
rance!), 2017:[] 
[1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669]
[1670] [1671]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 22074--22074
 []          \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e
xactly equal typically[] 
[1672]
Underfull \hbox (badness 6859) in paragraph at lines 22141--22148
[][][]\T1/pcr/m/n/10 predict.glm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p
redict.lm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.loess[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.nls[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 predict.poly[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 22152--22158
[]\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/pcr/m/n/10 predict.ar[
][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 ,
[1673] [1674] [1675] [1676] [1677]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 22440--22440
 []        \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N
A", "NAwarn"),[] 
Underfull \hbox (badness 10000) in paragraph at lines 22466--22469
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string
 spec-i-fy-ing what should hap-pen in the
Underfull \hbox (badness 10000) in paragraph at lines 22466--22469
\T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob
ject$rank <
[1678]
Underfull \hbox (badness 5832) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 cases, i.e., vec-tors not in the same pre-dic-tor sub-space as t
he
Underfull \hbox (badness 8151) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 orig-i-nal data (with tol-er-ance []\T1/pcr/m/n/10 tol[]\T1/ptm/
m/n/10 ). In that case, the non-
Underfull \hbox (badness 1184) in paragraph at lines 22471--22476
\T1/ptm/m/n/10 estimable in-dices are also re-turned as at-tribute []\T1/pcr/m/
n/10 "non-estim" []\T1/ptm/m/n/10 (see
[1679] [1680] [1681] [1682] [1683] [1684] [1685]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 22939--22939
 []         \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign
 = TRUE, ...)[] 
[1686] [1687] [1688] [1689]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 23223--23223
 []             \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x
)) &&[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 23224--23224
 []                          \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr("
, "p-v"),[] 
[1690] [1691] [1692] [1693] [1694] [1695] [1696]
Underfull \hbox (badness 1337) in paragraph at lines 23628--23634
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1697] [1698] [1699] [1700] [1701]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 23940--23940
 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim
 = c(-31, 31),[] 
[1702] [1703] [1704] [1705]
Underfull \hbox (badness 10000) in paragraph at lines 24253--24255
[]\T1/ptm/m/n/10 Wicklin, R. (2017) Sam-ple quan-tiles: A com-par-i-son of 9 de
f-i-ni-tions;
Underfull \hbox (badness 10000) in paragraph at lines 24253--24255
\T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co
ntent / iml / 2017 / 05 / 24 /
Underfull \hbox (badness 10000) in paragraph at lines 24256--24257
[]\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or
g / wiki / Quantile # Estimating _
[1706] [1707]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 24367--24367
 []       \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact"
, "compact"),[] 
[1708]
Underfull \hbox (badness 1028) in paragraph at lines 24425--24428
[]\T1/ptm/m/n/10 further ar-gu-ments to be passed to or from meth-ods; for []\T
1/pcr/m/n/10 write() []\T1/ptm/m/n/10 and
[1709] [1710]
Underfull \hbox (badness 10000) in paragraph at lines 24540--24543
[]\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by
Underfull \hbox (badness 7099) in paragraph at lines 24595--24597
[]\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 reorder[][][]()[]\T1/ptm/m/n/10 
, is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l
evels =
[1711]
Underfull \hbox (badness 7099) in paragraph at lines 24659--24661
[]\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 relevel[][][]()[]\T1/ptm/m/n/10 
, is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l
evels =
[1712]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24694--24694
 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, 
decreasing=TRUE))[] 
[1713]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24770--24770
 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 
10:1, mean)")[] 
[1714] [1715]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 24887--24887
 []\T1/pcr/m/n/10 #         varying = ___,  # list / matrix / vector (use with 
care)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 24888--24888
 []\T1/pcr/m/n/10 #         v.names = ___,  # vector of variable names in long 
format[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 24889--24889
 []\T1/pcr/m/n/10 #         timevar, times, # name / values of constructed time
 variable[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 24890--24890
 []\T1/pcr/m/n/10 #         idvar, ids)     # name / values of constructed id v
ariable[] 
[1716] [1717]
Underfull \hbox (badness 10000) in paragraph at lines 25047--25052
[][][]\T1/pcr/m/n/10 stack[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 aperm[]
[][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 relist[][][] []\T1/ptm/m/n/10 for r
e-shap-ing the re-sult of [][][]\T1/pcr/m/n/10 unlist[][][][]\T1/ptm/m/n/10 . [
][][]\T1/pcr/m/n/10 xtabs[][][] []\T1/ptm/m/n/10 and
Underfull \hbox (badness 2495) in paragraph at lines 25047--25052
[][][]\T1/pcr/m/n/10 as.data.frame.table[][][] []\T1/ptm/m/n/10 for cre-at-ing 
con-tin-gency ta-bles and con-vert-ing them back to
[1718]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 25058--25058
 []\T1/pcr/m/n/9 ## long to wide (direction = "wide") requires idvar and timeva
r at a minimum[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 25059--25059
 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev
ar = "time")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 25078--25078
 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide
", v.names = "x")[] 
[1719]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 25183--25183
 []       \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na.
omit", "fail"),[] 
[1720]
Underfull \hbox (badness 1033) in paragraph at lines 25226--25232
\T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 
where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/
m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where
Underfull \hbox (badness 10000) in paragraph at lines 25247--25250
[]\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/pcr/m/n/10 y = r
unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/pcr/m/n/10 y[j] =
[1721]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 25325--25325
 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi
ans Example")[] 
[1722]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 25351--25351
 []\T1/pcr/m/n/9 ## An example with initial NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s -
 used to fail badly (notably for "Turlach"):[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 25363--25363
 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1
:5, xlab = NA,[] 
[1723] [1724] [1725] [1726] [1727] [1728] [1729]
Underfull \hbox (badness 6268) in paragraph at lines 25822--25827
[][][]\T1/pcr/m/n/10 SSasympOrig[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 S
Sbiexp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfol[][][][]\T1/ptm/m/n/10
 , [][][]\T1/pcr/m/n/10 SSfpl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSgo
mpertz[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSlogis[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 SSmicmen[][][][]\T1/ptm/m/n/10 ,
[1730] [1731] [1732] [1733]
Underfull \hbox (badness 1867) in paragraph at lines 26032--26034
[]\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. 
Passed to
Underfull \hbox (badness 10000) in paragraph at lines 26048--26052
[]\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 NN <- [][]nobs[][][](object, use.fallba
ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 PP
Underfull \hbox (badness 10000) in paragraph at lines 26048--26052
\T1/pcr/m/n/10 <- sum(!is.na([][]coef[][][](object))) []\T1/ptm/m/n/10 -- where
 in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was
Overfull \hbox (20.58041pt too wide) in paragraph at lines 26090--26090
 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165  = "Residual standard error"  printed fr
om summary(lm1)[] 
[1734]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 26097--26097
 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole
rance=1e-15))[] 
[1735] [1736]
Underfull \hbox (badness 2495) in paragraph at lines 26279--26288
[]\T1/ptm/m/n/10 For an in-verse gaus-sian GLM the model as-sumed is $\OML/cmm/
m/it/10 IG\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 ^^V[]; ^^Uw[]\OT1/cmr/m/n/10 )$ \T1
/ptm/m/n/10 (see [][]$\T1/pcr/m/n/10 https : / / en .
[1737] [1738] [1739]
Underfull \hbox (badness 2197) in paragraph at lines 26425--26428
[]\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion,
 []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and
Overfull \hbox (24.78088pt too wide) in paragraph at lines 26445--26445
 []       \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends
 = FALSE)[] 
Underfull \hbox (badness 1412) in paragraph at lines 26452--26454
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui
red; de-faults to
[1740]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 26537--26537
 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS
S"), smooth(x)))[] 
[1741]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 26562--26562
 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda 
= NULL, cv = FALSE, 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 26565--26565
 []              \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee
p.stuff = FALSE)[] 
[1742] [1743] [1744]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 26790--26790
 []    \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t
ol) ))[] 
Underfull \hbox (badness 2547) in paragraph at lines 26794--26800
[]\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/
10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in
g only
Overfull \hbox (4.38043pt too wide) in paragraph at lines 26841--26841
 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars)  &  smoothi
ng splines")[] 
[1745]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 26862--26862
 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # =
= unique(cars$speed)[] 
[1746] [1747] [1748]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 27054--27054
 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na.
fail, 
[1749] [1750] [1751] [1752]
Underfull \hbox (badness 10000) in paragraph at lines 27319--27324
\T1/ptm/m/n/10 This makes the spec-tral den-sity a den-sity over the range []\T
1/pcr/m/n/10 (-frequency(x)/2,
[1753] [1754]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 27433--27433
 []          \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC"
, "hyman"),[] 
[1755] [1756]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 27615--27615
 []\T1/pcr/m/n/9 set.seed(8); x <- sort(round(rnorm(30), 1)); y <- round(sin(pi
 * x) + rnorm(30)/10, 3)[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 27621--27621
 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean))  
for when x has ties")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 27630--27630
 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "monoH.FC")(x), add = TRUE, c
ol = 3, n = 1001)[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 27631--27631
 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman")   (x), add = TRUE, c
ol = 4, n = 1001)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1757]
Underfull \hbox (badness 2922) in paragraph at lines 27700--27705
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1758]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 27737--27737
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5.2), xlim
 = c(-.3, 5),[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 27740--27740
 []                    \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^
{-e^{phi[3]}*~x}}))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 27749--27749
 []         \T1/pcr/m/n/9 c(0  ,  1   ), 1, length = 0.08, angle = 25); text(0.
5, 1, quote(1))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 27750--27750
 []  \T1/pcr/m/n/9 y0 <- 1 + 4*exp(-3/4) ; t.5 <- log(2) / exp(-3/4) ; AR2 <- 3
 # (Asym + R0)/2[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 27754--27754
 []  \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi
[1]+phi[2],2), phi[1]),[] 
[1759]
Underfull \hbox (badness 3240) in paragraph at lines 27808--27811
[][][]\T1/pcr/m/n/10 nls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 selfStart
[][][][]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 example(SSasympOff) []\T1/ptm/m/n/10 
gives graph show-ing the []\T1/pcr/m/n/10 SSasympOff
[1760]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 27829--27829
 []  \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOff(xx, Asym = 5, lrc = log(
0.4), c0 = 3/4)) )[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27832--27832
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim
 = c(-1, 8),[] 
[1761]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27915--27915
 []  \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOrig(xx, Asym = 5, lrc = log
(log(2)))) )[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27919--27919
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim =
 c(-1/4, 5),[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 27929--27929
 []  \T1/pcr/m/n/9 axis(2, at = 5*c(1/2,1), labels= expression(frac(phi[1],2), 
phi[1]), pos=0, las=1)[] 
Overfull \hbox (106.98032pt too wide) in paragraph at lines 27934--27934
 []       \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5]
 == frac(log(2), e^{phi[2]})}),[] 
[1762]
Underfull \hbox (badness 2922) in paragraph at lines 27970--27976
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27992--27992
 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat
a = Indo.1),[] 
[1763]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28008--28008
 []  \T1/pcr/m/n/9 legend("topright", c("y1+y2", "y1 = 3.5 * exp(-4*x)", "y2 = 
1.5 * exp(-x)"),[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 28022--28022
 []\T1/pcr/m/n/9 ## Fails by default (scaleOffset=0) on most platforms {also af
ter increasing maxiter !}[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28024--28024
 []        \T1/pcr/m/n/9 nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d
atN, trace=TRUE)[] 
Overfull \hbox (128.58029pt too wide) in paragraph at lines 28030--28030
 []            \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=
1e-11, nDcentral=TRUE), trace=TRUE)[] 
[1764] [1765]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 28141--28141
 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK
a)*input)) 
[1766]
Underfull \hbox (badness 2922) in paragraph at lines 28203--28208
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1767]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 28241--28241
 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm
id", phi[4] == "scal")))[] 
Underfull \hbox (badness 2922) in paragraph at lines 28290--28295
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1768]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28321--28321
 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = "
red", lwd=2)[] 
Underfull \hbox (badness 2922) in paragraph at lines 28355--28360
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
[1769]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28380--28380
 []\T1/pcr/m/n/9 ## Initial values are in fact the converged one here, "Number 
of iter...: 0" :[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 28384--28384
 []\T1/pcr/m/n/9 fm2 <- update(fm1, control=nls.control(tol = 1e-9, warnOnly=TR
UE), trace = TRUE)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28404--28404
 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] 
== "scal")))[] 
[1770]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 28414--28414
 []  \T1/pcr/m/n/9 segments(c(2,2.6,2.6), c(0,  2.5,3.5),   # NB.  SSlogis(x = 
xmid = 2) = 2.5[] 
Underfull \hbox (badness 2922) in paragraph at lines 28449--28454
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu
t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28471--28471
 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt),
 digits = 3)[] 
[1771]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 28489--28489
 []       \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS
micmen model")[] 
[1772]
Underfull \hbox (badness 6493) in paragraph at lines 28541--28546
[]\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 x[]\
T1/ptm/m/n/10 . It is the value of the ex-pres-sion
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28569--28569
 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28571--28571
 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 28575--28575
 []\T1/pcr/m/n/9 plot(weight ~ Time, Chick.6, xlim = c(0, 21), main = "SSweibul
l() fit to Chick.6")[] 
Overfull \hbox (69.18036pt too wide) in paragraph at lines 28578--28578
 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f
m1)[["Drop"]]), lty = 3)[] 
[1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783]
[1784] [1785] [1786]
Underfull \hbox (badness 3396) in paragraph at lines 29452--29454
[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.glm"[]\T1/ptm/m/
n/10 , usu-ally, a re-sult of a call to
[1787] [1788] [1789]
Underfull \hbox (badness 2237) in paragraph at lines 29631--29633
[]\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1
/pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if
[1790] [1791]
Underfull \hbox (badness 2591) in paragraph at lines 29795--29797
[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.nls"[]\T1/ptm/m/
n/10 , usu-ally the re-sult of a call to
[1792]
Underfull \hbox (badness 2237) in paragraph at lines 29841--29844
[]\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1
/pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if
[1793]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 29914--29914
 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t
race = FALSE) 
[1794] [1795]
Underfull \hbox (badness 3407) in paragraph at lines 30023--30027
[]\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m
ented\T1/ptm/m/n/10 , see []\T1/pcr/m/n/10 corr []\T1/ptm/m/n/10 be-low)
[1796]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 30093--30093
 []\T1/pcr/m/n/9 symnum(ii, cutpoints =  2*(0:4), symbols = c(".", "-", "+", "$
"), show.max = TRUE)[] 
[1797]
Underfull \hbox (badness 1337) in paragraph at lines 30156--30160
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1798] [1799] [1800] [1801]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 30430--30430
 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, 
main = t.tit,[] 
[1802]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 30473--30473
 []         \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com
mon",[] 
Underfull \hbox (badness 1616) in paragraph at lines 30499--30502
[]\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial
 resid-u-als, when
[1803]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 30578--30578
 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s
pan.smth = 1/4)[] 
[1804] [1805]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 30656--30656
 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = 
TRUE,[] 
[1806] [1807] [1808]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 30895--30895
 []\T1/pcr/m/n/10 toeplitz2(x, nrow = length(x) +1 - ncol, ncol = length(x) +1 
- nrow)[] 
Underfull \hbox (badness 2913) in paragraph at lines 30901--30905
[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 toeplitz(x, *)[]\T1/ptm/m/n/10 : the firs
t col-umn of the Toeplitz ma-trix; for
[1809]
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 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex .
.) {also warning}:[] 
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 []   \T1/pcr/m/n/9 colnames(W) <- paste0(",", if(n <= 9) 1:n else c(1:9, lette
rs[seq_len(n-9)]))[] 
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 []\T1/pcr/m/n/9 y.hat <- W. %*% y # y.hat := smoothed(y) ("mass preserving" ->
 longer than y)[] 
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 []\T1/pcr/m/n/9 plot(x,y, type="b", xlim=c(1,m)); curve(f(x), 1,n, col="gray",
 lty=2, add=TRUE)[] 
[1810]
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else "ts",[] 
[1811]
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[]\T1/pcr/m/n/10 is.mts(x) []\T1/ptm/m/n/10 tests if an ob-ject []\T1/pcr/m/n/1
0 x []\T1/ptm/m/n/10 is a mul-ti-vari-ate time se-ries, i.e., ful-fills []\T1/p
cr/m/n/10 is.ts(x)[]\T1/ptm/m/n/10 ,
[1812] [1813] [1814] [1815] [1816]
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 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE) 
[1817]
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 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1818] [1819] [1820] [1821]
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v = FALSE,[] 
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 = 0)[] 
[1822] [1823]
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 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature
s: --------------[] 
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 []\T1/pcr/m/n/9 ## where as  \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 extendInt="yes"\TS1
/pcr/m/n/9 '  \T1/pcr/m/n/9 simply first enlarges the search interval:[] 
[1824] [1825] [1826] [1827]
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[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
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[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth-
e-sis, must be one of
[1836] [1837] [1838]
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 []\T1/pcr/m/n/9 wilcox.test( 4:2,      3:1,     paired=TRUE) # Warning:  canno
t compute exact p-value with ties[] 
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 []\T1/pcr/m/n/9 wilcox.test((4:2)/10, (3:1)/10, paired=TRUE, digits.rank = 9) 
# same ties as (4:2, 3:1)[] 
[1839] [1840]
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 []      \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps
 = getOption("ts.eps"), ...)[] 
[1841]
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ALSE, 
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 []      \T1/pcr/m/n/10 exclude = if(!addNA) c(NA, NaN), drop.unused.levels = F
ALSE)[] 
[1842] [1843] [1844] [1845]) (./stats4-pkg.tex [1846]
Chapter 11.
[1847] [1848] [1849]
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 []    \T1/pcr/m/n/9 -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/exp(lxhalf))
, log = TRUE))[] 
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 []\T1/pcr/m/n/9 ## Boundary case: This works, but fails if limits are set clos
er to 0 and 1[] 
[1851] [1852] [1853] [1854]pdfTeX warning (ext4): destination with the same ide
ntifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored
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                   \relax 
l.503 ...Package \pkg{stats4}}{show.Rdash.methods}
                                                   [1855] [1856] [1857])
(./tcltk-pkg.tex [1858]
Chapter 12.
[1859] [1860] [1861] [1862] [1863]
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 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca
llback ref in here[] 
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[]\T1/pcr/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i
ng any Tk or Tcl com-mand by sim-ply run-ning
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 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0.
0", "end"))))[] 
[1873] [1874] [1875] [1876] [1877]
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[][][]\T1/pcr/m/n/10 select.list[][][] []\T1/ptm/m/n/10 (a text ver-sion ex-cep
t on Win-dows and the ma-cOS GUI), [][][]\T1/pcr/m/n/10 menu[][][] []\T1/ptm/m/
n/10 (whose
[1878]) (./tools-pkg.tex
Chapter 13.
[1879]
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 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for
 new methods.[] 
[1880]
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[]\T1/pcr/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will
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[1881]
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ing warning)[] 
[1882]
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[]\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t
o ren-der each of the 12
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\T1/ptm/m/n/10 types of bib-li-o-graphic en-try sup-ported by [][][]\T1/pcr/m/n
/10 bibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-
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\T1/ptm/m/n/10 tines de-scribed be-low. The for-mer must be named []\T1/pcr/m/n
/10 formatArticle[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 formatBook[]\T1/ptm/m/n/10
 ,
[1883]
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ngle = TRUE, 
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[]\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin
e to use. Over-rides any
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\T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s
ub-di-rec-tory
[1886] [1887] [1888] [1889] [1890] [1891]
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\T1/ptm/m/n/10 by \T1/pcr/m/n/10 \donttest\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \dont
diff \T1/ptm/m/n/10 or \T1/pcr/m/n/10 \dontshow\T1/ptm/m/n/10 , and \T1/pcr/m/n
/10 \title \T1/ptm/m/n/10 re-placed by \T1/pcr/m/n/10 \section \T1/ptm/m/n/10 o
r
[1892]
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 []\T1/pcr/m/n/10 resaveRdaFiles(paths, compress = c("auto", "gzip", "bzip2", "
xz"),[] 
[1893]
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 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co
mpress == "none")[] 
[1894] [1895] [1896]
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E, ...)[] 
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 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU
E, ...)[] 
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[]\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v
erse de-pen-den-cies
[1897]
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[]\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a 
pre-vi-ous
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[]\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-
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\T1/ptm/m/n/10 ing []\T1/pcr/m/n/10 summarize_check_packages_in_dir_results []\
T1/ptm/m/n/10 and
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[]\T1/pcr/m/n/10 check_packages_in_dir []\T1/ptm/m/n/10 re-turns an ob-ject in-
her-it-ing from class
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[]\T1/pcr/m/n/10 codocClasses []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 codocData [
]\T1/ptm/m/n/10 re-turn ob-jects of class []\T1/pcr/m/n/10 "codocClasses" []\T1
/ptm/m/n/10 and
[1900] [1901] [1902]
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[]\T1/pcr/m/n/10 CRAN_package_db() []\T1/ptm/m/n/10 re-turns a data frame with 
char-ac-ter columns con-tain-ing most
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\T1/ptm/m/n/10 `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' meta-data for the cu
r-rent pack-ages in the CRAN pack-age repos-i-
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\T1/ptm/m/n/10 tory, in-clud-ing in par-tic-u-lar the De-scrip-tion and Main-ta
iner in-for-ma-tion not pro-vided by
[1903]
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[]\T1/ptm/m/n/10 Internal func-tions []\T1/pcr/m/n/10 CRAN_aliases_db[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CR
AN_current_db []\T1/ptm/m/n/10 and
[1904]
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hances"))[] 
[1905]
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
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\T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1
0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor,
[1906] [1907] [1908]pdfTeX warning (ext4): destination with the same identifier
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[1912]
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 loadPkgRdMacros []\T1/ptm/m/n/10 func-tio
n first looks for an []\T1/pcr/m/n/10 "RdMacros" []\T1/ptm/m/n/10 en-try in the
 pack-age
[1913]
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[]\T1/ptm/m/n/10 Package main-tain-ers can use these func-tions to em-ploy user
 and site spe-cific com-pi-la-
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\T1/ptm/m/n/10 tion set-tings also for com-pi-la-tions not us-ing \T1/phv/m/n/1
0 R\T1/ptm/m/n/10 's mech-a-nisms (in par-tic-u-lar, cus-tom com-
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\T1/ptm/m/n/10 pi-la-tions in sub-di-rec-to-ries of `\T1/pcr/m/n/10 src\T1/ptm/
m/n/10 '), e.g., by adding con-fig-ure code call-ing \T1/phv/m/n/10 R \T1/ptm/m
/n/10 with
[1914]
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\T1/ptm/m/n/10 This al-lows e.g. the trans-la-tions shipped in \T1/phv/m/n/10 R
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[]\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca
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[1915]
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[]\T1/ptm/m/n/10 The de-fault method of []\T1/pcr/m/n/10 as.Rconcordance []\T1/
ptm/m/n/10 searches for strings match-ing the pat-tern of
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[]\T1/pcr/m/n/10 followConcordance []\T1/ptm/m/n/10 is used when a file is tran
s-formed more than once. The first
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\T1/ptm/m/n/10 trans-for-ma-tion records a con-cor-dance in the file which is r
ead as []\T1/pcr/m/n/10 prevConcordance[]\T1/ptm/m/n/10 .
[1916]
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ong", 
[1917]
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
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\T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1
0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor,
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 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster"
, "codetools")[] 
[1918]
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 []    \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations
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[1919] [1920] [1921] [1922]
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[1923]
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[]\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion 3.2.0, User-d
efined macros may be given in a sep-a-rate file us-ing
[1924]
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.css"),[] 
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ml", pkg)),[] 
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athjax-config.js"),[] 
[1925] [1926] [1927]
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[1928]
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[1929] [1930] [1931]
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[]\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-
tor of links, as re-turned by
[1932] [1933] [1934] [1935] [1936]
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s", "system.Rd"))[] 
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[]\T1/ptm/m/n/10 By de-fault, the tags \T1/pcr/m/n/10 \S3method\T1/ptm/m/n/10 ,
 \T1/pcr/m/n/10 \S4method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \command\T1/ptm/m/n/10
 , \T1/pcr/m/n/10 \docType\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \email\T1/ptm/m/n/10 
,
[1937] [1938] [1939]
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[]\T1/ptm/m/n/10 This func-tion starts the in-ter-nal HTTP server, which runs o
n the loop-back in-ter-face
[1940] [1941]
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es"),[] 
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net", "all"),[] 
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[]\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run
,
[1942]
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 []\T1/pcr/m/n/9 (prio <- sapply(as.vector(pNms), packageDescription, fields = 
"Priority"))[] 
[1943] [1944]
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[]\T1/ptm/m/n/10 Where sup-ported ([]\T1/pcr/m/n/10 texi2dvi []\T1/ptm/m/n/10 5
.0 and later; []\T1/pcr/m/n/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op-ti
on
[1945] [1946] [1947]
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run),[] 
[1948] [1949] [1950]
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[]\T1/ptm/m/n/10 optional char-ac-ter strings for the `[]\T1/pcr/m/n/10 Copyrig
ht[]\T1/ptm/m/n/10 ' and
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[]\T1/ptm/m/n/10 All ex-ist-ing files in di-rec-tory []\T1/pcr/m/n/10 po []\T1/
ptm/m/n/10 with names `\T1/pcr/m/n/10 R-\T1/ptm/m/sl/10 lang\T1/pcr/m/n/10 .po\
T1/ptm/m/n/10 ' are up-dated from
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[]\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/pcr/m/n/10 po
/\T1/ptm/m/sl/10 pkgname\T1/pcr/m/n/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. T
he
Underfull \hbox (badness 2941) in paragraph at lines 4831--4837
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in t
he pack-age are ex-am-ined to cre-ate a file
[1951] [1952] [1953] [1954]
Underfull \hbox (badness 10000) in paragraph at lines 5065--5067
[]\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 vignetteEngine[][][][]\T1/ptm/m/n/10 
, such as []\T1/pcr/m/n/10 "utils::Sweave" []\T1/ptm/m/n/10 or
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5094--5094
 []               \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F
ALSE,[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 5095--5095
 []               \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr
ess = "xz",[] 
[1955]
Underfull \hbox (badness 3240) in paragraph at lines 5108--5111
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T
1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/10 ',
Underfull \hbox (badness 1742) in paragraph at lines 5112--5122
[]\T1/pcr/m/n/10 "Package"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Version"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "Priority"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Depe
nds"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Imports"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1127) in paragraph at lines 5150--5156
[]\T1/pcr/m/n/10 write_PACKAGES []\T1/ptm/m/n/10 scans the named di-rec-tory fo
r R pack-ages, ex-tracts in-for-ma-tion from
Underfull \hbox (badness 1635) in paragraph at lines 5150--5156
\T1/ptm/m/n/10 each pack-age's `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file
, and writes this in-for-ma-tion into the `\T1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/1
0 ',
[1956]
Underfull \hbox (badness 1571) in paragraph at lines 5178--5182
[]\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down-
load speed and time spent by
Underfull \hbox (badness 2772) in paragraph at lines 5204--5209
\T1/ptm/m/n/10 and `\T1/pcr/m/n/10 PACKAGES.gz\T1/ptm/m/n/10 ' files. See [][][
]\T1/pcr/m/n/10 update_PACKAGES[][][] []\T1/ptm/m/n/10 for ef-fi-ciently up-dat
-ing ex-ist-ing
[1957] [1958]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5342--5342
 []  \T1/pcr/m/n/9 "    stop(errorCondition(gettext(\TS1/pcr/m/n/9 '\T1/pcr/m/n
/9 needs Deep Thought\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), class=\TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 myError\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ))",[] 
[1959]) (./utils-pkg.tex [1960]
Chapter 14.
Underfull \hbox (badness 1072) in paragraph at lines 47--52
[]\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[]
\T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ',
[1961] [1962] [1963] [1964]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 260--260
 []\T1/pcr/m/n/9 find("cor", numeric = TRUE)                     # numbers with
 these names[] 
[1965] [1966]
Underfull \hbox (badness 10000) in paragraph at lines 378--383
\T1/ptm/m/n/10 are []\T1/pcr/m/n/10 c("vertical", "horizontal", "cascade", "min
imize",
Underfull \hbox (badness 10000) in paragraph at lines 384--386
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 of win-dow 
han-dles, by de-fault pro-duced by
[1967]
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 []\T1/pcr/m/n/9 # This default is useful only in SDI mode:  it will tile any F
irefox window[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 452--452
 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("",
 "Firefox"))[] 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 469--469
 []         \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No
", "Cancel"))),[] 
[1968] [1969] [1970]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 691--691
 []\T1/pcr/m/n/10 aspell_package_R_files(dir, ignore = character(), control = l
ist(),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 692--692
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 693--693
 []\T1/pcr/m/n/10 aspell_package_C_files(dir, ignore = character(), control = l
ist(),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 694--694
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
[1971]
Underfull \hbox (badness 10000) in paragraph at lines 728--734
[]\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 aspell_package_Rd_files[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 aspell_package_vignettes[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 4416) in paragraph at lines 728--734
[]\T1/pcr/m/n/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 a
spell_package_C_files []\T1/ptm/m/n/10 per-form spell check-
[1972] [1973]
Underfull \hbox (badness 1552) in paragraph at lines 927--933
[]\T1/ptm/m/n/10 A char-ac-ter ma-trix with one row per pack-age, row names the
 pack-age names and col-
[1974]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 954--954
 []\T1/pcr/m/n/9 db <- available.packages(repos = findCRANmirror("web"), filter
s = "duplicates")[] 
[1975]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 1056--1056
 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer =
 NULL, 
[1976]
Underfull \hbox (badness 7649) in paragraph at lines 1130--1136
[][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if Bib-TeX co
de should be given ad-di-tion-ally;
Underfull \hbox (badness 5533) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 cur-rently ap-plies only to []\T1/pcr/m/n/10 style = "citation"[
]\T1/ptm/m/n/10 . The de-fault for
Underfull \hbox (badness 4739) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 the []\T1/pcr/m/n/10 print() []\T1/ptm/m/n/10 method de-pends on
 the num-ber of (bib) en-tries and
Underfull \hbox (badness 1215) in paragraph at lines 1130--1136
\T1/ptm/m/n/10 For ex-am-ple, to see no Bib-TeX at all, you can change the de-f
ault by
[1977]
Underfull \hbox (badness 10000) in paragraph at lines 1139--1141
[]\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing
[1978]
Underfull \hbox (badness 10000) in paragraph at lines 1257--1260
[]\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Digital _ Object _
[1979]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1340--1340
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1980] [1981] [1982] [1983] [1984] [1985]
Underfull \hbox (badness 1859) in paragraph at lines 1749--1758
[]\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b
e quite large the com-
Underfull \hbox (badness 2042) in paragraph at lines 1749--1758
\T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1
/ptm/m/n/10 never re-turns. Do not re-port that
[1986] [1987]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1854--1854
 []                                     \T1/pcr/m/n/9 data = infert, family = b
inomial())))[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 1889--1889
 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b
efore$timestamp,[] 
[1988] [1989]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 2035--2035
 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp"
), md5sum=TRUE)[] 
[1990]
Underfull \hbox (badness 2277) in paragraph at lines 2104--2109
[]\T1/pcr/m/n/10 charClass []\T1/ptm/m/n/10 was added in \T1/phv/m/n/10 R \T1/p
tm/m/n/10 4.1.0. A less di-rect way to ex-am-ine char-ac-ter classes
[1991]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 2136--2136
 []\T1/pcr/m/n/9 cl <- c("alnum", "alpha", "blank", "digit", "graph", "punct", 
"upper", "xdigit")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2138--2138
 []\T1/pcr/m/n/9 X <- as.data.frame(X); row.names(X) <- sQuote(intToUtf8(x, mul
tiple = TRUE))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 2146--2146
 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in
 Unicode 13.)[] 
[1992] [1993]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2294--2294
 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1994]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2346--2346
 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1995]
Underfull \hbox (badness 1117) in paragraph at lines 2461--2468
[]\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/pcr/m/n/10 citation() []\T1/
ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print
Underfull \hbox (badness 1400) in paragraph at lines 2461--2468
\T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I
f a pack-age has more
[1996] [1997]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2544--2544
 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after =
 NULL,[] 
[1998]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2664--2664
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1999]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 2704--2704
 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N
ULL, ...) 
Underfull \hbox (badness 1082) in paragraph at lines 2733--2737
[][][]\T1/pcr/m/n/10 citation[][][] []\T1/ptm/m/n/10 for more in-for-ma-tion ab
out cit-ing R and R pack-ages and `\T1/pcr/m/n/10 CITATION\T1/ptm/m/n/10 ' file
s;
[2000]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cli
pboard}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.2738 ... the Clipboard in MS Windows}{clipboard}
                                                  
Underfull \hbox (badness 1163) in paragraph at lines 2769--2771
[]\T1/ptm/m/n/10 The Win-dows clip-board of-fers data in a num-ber of for-mats:
 see e.g. [][]$\T1/pcr/m/n/10 https : / / docs .
Overfull \vbox (1.12102pt too high) has occurred while \output is active
[2001] [2002]
Underfull \hbox (badness 10000) in paragraph at lines 2862--2864
[]\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/
phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see
[2003] [2004] [2005]
Underfull \hbox (badness 10000) in paragraph at lines 3083--3085
[]\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see
[2006] [2007] [2008] [2009]
Underfull \hbox (badness 1762) in paragraph at lines 3376--3379
[]\T1/ptm/m/n/10 To just look in the `\T1/pcr/m/n/10 data\T1/ptm/m/n/10 ' di-re
c-tory of the cur-rent work-ing di-rec-tory, set []\T1/pcr/m/n/10 package =
[2010]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3464--3464
 []\T1/pcr/m/n/9 try(data(package = "rpart"), silent = TRUE) # list the data se
ts in the rpart package[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3465--3465
 []\T1/pcr/m/n/9 data(USArrests, "VADeaths")    # load the data sets \TS1/pcr/m
/n/9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 
'\T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] 
[2011]
Underfull \hbox (badness 2452) in paragraph at lines 3539--3542
[]\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class []\
T1/pcr/m/n/10 R_dataentry[]\T1/ptm/m/n/10 . Re-sources
[2012] [2013] [2014] [2015] [2016] [2017] [2018]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 3967--3967
 []  \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf
orm$r_arch, "stats.dll"))[] 
[2019]
Underfull \hbox (badness 4779) in paragraph at lines 4048--4053
[]\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10
 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use
[2020]
Underfull \hbox (badness 1072) in paragraph at lines 4111--4115
[]\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by
 the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the
Underfull \hbox (badness 7238) in paragraph at lines 4167--4172
[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1
0 via \T1/ptm/m/n/10 the en-vi-ron-
Underfull \hbox (badness 1337) in paragraph at lines 4167--4172
\T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or 
[]\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / 
/ curl . se / libcurl / c /
Underfull \hbox (badness 1184) in paragraph at lines 4182--4198
\T1/ptm/m/n/10 string con-tain-ing `[]\T1/pcr/m/n/10 "Schannel"[]\T1/ptm/m/n/10
 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-
[2021] [2022]
Underfull \hbox (badness 4660) in paragraph at lines 4308--4311
\T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/
m/n/10 which makes an in-ter-nal call to
Underfull \hbox (badness 10000) in paragraph at lines 4332--4334
[]\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 do
wnload.file[][][] []\T1/ptm/m/n/10 and
[2023] [2024] [2025]
Underfull \hbox (badness 1565) in paragraph at lines 4519--4523
[]\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c
har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of
[2026]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4602--4602
 []        \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F
ALSE,[] 
[2027]
Underfull \hbox (badness 1910) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 is saved, then ini-tial-ized to a spec-i-fied state, the ex-am-p
le is run and
Underfull \hbox (badness 1655) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 the (saved) state is re-stored. []\T1/pcr/m/n/10 setRNG = TRUE [
]\T1/ptm/m/n/10 sets the same state as
Underfull \hbox (badness 2846) in paragraph at lines 4637--4644
[]\T1/pcr/m/n/10 R CMD [][]check[][][] []\T1/ptm/m/n/10 does for run-ning a pac
k-age's ex-am-ples. This is cur-
Underfull \hbox (badness 3460) in paragraph at lines 4637--4644
\T1/ptm/m/n/10 rently equiv-a-lent to []\T1/pcr/m/n/10 setRNG = {RNGkind("defau
lt", "default",
Underfull \hbox (badness 1931) in paragraph at lines 4644--4651
[]\T1/ptm/m/n/10 logical (or []\T1/pcr/m/n/10 "default"[]\T1/ptm/m/n/10 ) in-di
-cat-ing if [][][]\T1/pcr/m/n/10 devAskNewPage[][][](ask = TRUE)
[2028] [2029] [2030] [2031]
Underfull \hbox (badness 5939) in paragraph at lines 4897--4899
[]\T1/ptm/m/n/10 An en-try in []\T1/pcr/m/n/10 getOption("repos") []\T1/ptm/m/n
/10 named `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' which is not the de-fault
[2032] [2033]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5040--5040
 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o
ne is in the[] 
[2034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for
mat}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5111 ...mat Unordered and Ordered Lists}{format}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.format.1}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.5111 ...mat Unordered and Ordered Lists}{format}
                                                   [2035] [2036] [2037]
[2038] [2039] [2040] [2041] [2042]
Underfull \hbox (badness 1622) in paragraph at lines 5634--5638
[]\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing
 to ex-ter-nal GUIs or to the
[2043] [2044] [2045] [2046] [2047] [2048]
Underfull \hbox (badness 1448) in paragraph at lines 6019--6024
[]\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject
s, cor-re-spond-ing to call-ing
[2049] [2050]
Overfull \hbox (96.78088pt too wide) in paragraph at lines 6166--6166
 []\T1/pcr/m/n/10 ## NB: The methods for \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 data.f
rame\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 and \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 array\
TS1/pcr/m/n/10 '  \T1/pcr/m/n/10 are identical to the \TS1/pcr/m/n/10 '\T1/pcr/
m/n/10 matrix\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 one[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 6178--6178
 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported 
as tail.matrix()[] 
[2051] [2052]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6312--6312
 []    \T1/pcr/m/n/9 ## BUT if I use "useAttrib(.)", this is *not* ok, when n i
s of length 2:[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 6313--6313
 []    \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops 
"other" attributes ..[] 
[2053] [2054] [2055]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6523--6523
 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h
elp(dgamma):[] 
[2056]
Underfull \hbox (badness 10000) in paragraph at lines 6607--6609
[]\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 https : / / www . r-[]
project . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also
[2057]
Underfull \hbox (badness 1502) in paragraph at lines 6656--6662
[]\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words
'. `Key-
Underfull \hbox (badness 2103) in paragraph at lines 6656--6662
\T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are 
listed in file
[2058] [2059]
Underfull \hbox (badness 10000) in paragraph at lines 6833--6842
[]\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-
Underfull \hbox (badness 10000) in paragraph at lines 6833--6842
\T1/ptm/m/n/10 dex, `\T1/ptm/m/sl/10 R_DOC_DIR\T1/pcr/m/n/10 /html/packages.htm
l\T1/ptm/m/n/10 ', which can be re-made by
[2060]
Underfull \hbox (badness 2150) in paragraph at lines 6895--6898
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion 
to search. See
Underfull \hbox (badness 5175) in paragraph at lines 6911--6914
[]\T1/pcr/m/n/10 hsearch_db() []\T1/ptm/m/n/10 builds and caches the help searc
h database for sub-se-quent use by
[2061] [2062]
Underfull \hbox (badness 3118) in paragraph at lines 7034--7036
[]\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion `
Lock-ing' in the help for
[2063] [2064]
Underfull \hbox (badness 5091) in paragraph at lines 7209--7211
[]\T1/ptm/m/n/10 download method, see [][][]\T1/pcr/m/n/10 download.file[][][][
]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL
[2065]
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[]\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 means to use []\T1/pcr/m/n/10 c("Depends
", "Imports", "LinkingTo",
Underfull \hbox (badness 10000) in paragraph at lines 7239--7246
\T1/pcr/m/n/10 "Suggests") []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pkgs []\T1/ptm
/m/n/10 and []\T1/pcr/m/n/10 c("Depends", "Imports",
Underfull \hbox (badness 1270) in paragraph at lines 7239--7246
\T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in
-stalls all the pack-ages
Underfull \hbox (badness 1270) in paragraph at lines 7254--7264
\T1/ptm/m/n/10 for the `[]\T1/pcr/m/n/10 --configure-args[]\T1/ptm/m/n/10 ' fla
g in the call to []\T1/pcr/m/n/10 R CMD INSTALL[]\T1/ptm/m/n/10 . If
[2066]
Underfull \hbox (badness 4441) in paragraph at lines 7297--7300
[]\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to
 be passed to
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[]\T1/pcr/m/n/10 R CMD INSTALL []\T1/ptm/m/n/10 for a source pack-age in-stall.
 E.g., []\T1/pcr/m/n/10 c("--html",
Underfull \hbox (badness 1424) in paragraph at lines 7305--7308
[]\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p
tm/m/it/10 not \T1/ptm/m/n/10 passed to
Underfull \hbox (badness 10000) in paragraph at lines 7318--7322
[]\T1/ptm/m/n/10 further ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 downl
oad.file[][][][]\T1/ptm/m/n/10 ,
[2067]
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[]\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/pcr/m/n
/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail-
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\T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there
 are source pack-ages
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\T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com
-piled is con-trolled by
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[]\T1/ptm/m/n/10 Using pack-ages with []\T1/pcr/m/n/10 type = "source" []\T1/pt
m/m/n/10 al-ways works pro-vided the pack-age con-tains no
[2068]
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[]\T1/pcr/m/n/10 install.packages []\T1/ptm/m/n/10 needs to be able to com-pute
 all the de-pen-den-cies of []\T1/pcr/m/n/10 pkgs []\T1/ptm/m/n/10 from
[2069]
Underfull \hbox (badness 10000) in paragraph at lines 7547--7552
[][][]\T1/pcr/m/n/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pac
kages[][][][]\T1/ptm/m/n/10 ,
Overfull \hbox (25.98041pt too wide) in paragraph at lines 7570--7570
 []  \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc
lude/udunits2"))[] 
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[]\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each
 pack-age's
Underfull \hbox (badness 1983) in paragraph at lines 7620--7623
[]\T1/pcr/m/n/10 installed.packages []\T1/ptm/m/n/10 scans the `\T1/pcr/m/n/10 
DESCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along
[2070]
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 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields
 = "License")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7672--7672
 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot
hers separate![] 
[2071] [2072]
Underfull \hbox (badness 4132) in paragraph at lines 7798--7800
[]\T1/ptm/m/n/10 The ac-tual link-ing com-mand is con-structed by the ver-sion 
of []\T1/pcr/m/n/10 libtool []\T1/ptm/m/n/10 in-stalled at
[2073] [2074] [2075]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7965--7965
 []\T1/pcr/m/n/9 ls.str(mode = "list")   #- what are the structured objects I h
ave defined?[] 
[2076] [2077]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 8108--8108
 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F
ALSE) 
[2078]
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[]\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/
phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see
[2079]
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 []   \T1/pcr/m/n/10 methods(generic.function, class, all.names = FALSE, dropPa
th = FALSE)[] 
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 []                                    \T1/pcr/m/n/10 all.names = FALSE, dropPa
th = FALSE)[] 
Underfull \hbox (badness 10000) in paragraph at lines 8255--8257
[]\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if
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[]\T1/ptm/m/n/10 typically the re-sult of []\T1/pcr/m/n/10 methods(..)[]\T1/ptm
/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class
[2080] [2081] [2082] [2083]
Underfull \hbox (badness 1859) in paragraph at lines 8502--8505
[]\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br
owser (by
[2084] [2085]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 8630--8630
 []\T1/pcr/m/n/9 db4 <- news(Version == "4.0.0" & grepl("^BUG", Category) & gre
pl("PR#", Text),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 8636--8636
 []\T1/pcr/m/n/9 ## News from a date range (\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Matri
x\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is there in a regular R installation):[] 
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 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st
andardize a bit more[] 
[2086]
Underfull \hbox (badness 1917) in paragraph at lines 8731--8733
[]\T1/pcr/m/n/10 "B"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "KiB"[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 "MiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "GiB"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "TiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "PiB"[]\T1/ptm/m/
n/10 ,
Underfull \hbox (badness 1331) in paragraph at lines 8739--8743
[]\T1/ptm/m/n/10 For all stan-dards, []\T1/pcr/m/n/10 units = "auto" []\T1/ptm/
m/n/10 is also al-lowed. If []\T1/pcr/m/n/10 standard =
[2087] [2088] [2089]
Underfull \hbox (badness 7099) in paragraph at lines 8903--8908
[]\T1/ptm/m/n/10 optionally a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/
n/10 string with an en-cod-ing for an op-tional
[2090]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 9005--9005
 []            \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica
tion", "Built"),[] 
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 []            \T1/pcr/m/n/10 tryFormats = c("%Y-%m-%d", "%Y/%m/%d", "%D", "%m/
%d/%y"),[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 9007--9007
 []            \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f
ields=date.fields))[] 
[2091]
Underfull \hbox (badness 10000) in paragraph at lines 9035--9037
[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 asDateBuilt()[]\T1/ptm/m/n/10 , a [][][]\
T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string as from
Underfull \hbox (badness 10000) in paragraph at lines 9049--9051
[]\T1/pcr/m/n/10 packageVersion() []\T1/ptm/m/n/10 is a con-ve-nience short-cut
, al-low-ing things like []\T1/pcr/m/n/10 if
Underfull \hbox (badness 1259) in paragraph at lines 9057--9062
[]\T1/ptm/m/n/10 If a `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the 
given pack-age is found and can suc-cess-fully be read,
[2092]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 9101--9101
 []          \T1/pcr/m/n/9 identical(pu, packageDate("stats"))) # as "utils" an
d "stats" are[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 9102--9102
 []                                   \T1/pcr/m/n/9 # both \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 base R\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and "Built" at same time[] 
[2093] [2094]
Underfull \hbox (badness 10000) in paragraph at lines 9228--9233
[]\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit
h lev-els []\T1/pcr/m/n/10 c("ok", "upgrade",
Underfull \hbox (badness 10000) in paragraph at lines 9235--9238
[]\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit
h lev-els []\T1/pcr/m/n/10 c("installed", "not
[2095] [2096]
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 []       \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme
nt"),[] 
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 []       \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", 
">"),[] 
[2097] [2098]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9538--9538
 []         \T1/pcr/m/n/9 "S original, <http://statwww.epfl.ch/davison/BMA/libr
ary.html>"),[] 
[2099] [2100] [2101]
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[]\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for
 more dis-cus-sion of the
[2102] [2103] [2104]
Underfull \hbox (badness 2600) in paragraph at lines 9930--9933
[]\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic;
 de-faults to
[2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 10553--10553
 []         \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "
no.loss"),[] 
[2113] [2114] [2115]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 10714--10714
 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr
anspose = TRUE)[] 
[2116] [2117]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 10895--10895
 []\T1/pcr/m/n/9 read.fwf(ff, widths = list(c(1,0, 2,3), c(2,2,2))) #> 1 NA 23 
456 98 76 54[] 
[2118] [2119]
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 []           \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss",
 "no.loss"),[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 10982--10982
 []           \T1/pcr/m/n/10 row.names, col.names, as.is = !stringsAsFactors, t
ryLogical = TRUE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 10984--10984
 []           \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines.
skip,[] 
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 []           \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski
pNul = FALSE)[] 
[2120]
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[]\T1/ptm/m/n/10 Using []\T1/pcr/m/n/10 row.names = NULL []\T1/ptm/m/n/10 force
s row num-ber-ing. Miss-ing or []\T1/pcr/m/n/10 NULL
Underfull \hbox (badness 2435) in paragraph at lines 11084--11088
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 de-ter-m
in-ing if columns con-sist-ing en-tirely of []\T1/pcr/m/n/10 "F"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1824) in paragraph at lines 11084--11088
[]\T1/pcr/m/n/10 "FALSE"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "TRUE" []\T1/pt
m/m/n/10 should be con-verted to [][][]\T1/pcr/m/n/10 logical[][][][]\T1/ptm/m/
n/10 ; passed to
[2121] [2122] [2123] [2124]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 11346--11346
 []\T1/pcr/m/n/10 readRegistry(key, hive = c("HLM", "HCR", "HCU", "HU", "HCC", 
"HPD"), 
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 []             \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64-
bit"))[] 
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
[]\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/
pcr/m/n/10 HKEY_CLASSES_ROOT[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 10000) in paragraph at lines 11354--11359
[]\T1/pcr/m/n/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_USER
S[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_CURRENT_CONFIG
[2125] [2126] [2127]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 11586--11586
 []        \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c
(1, 0))) 
[2128] [2129] [2130] [2131] [2132]
Underfull \hbox (badness 2469) in paragraph at lines 11852--11856
[]\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2024). Ro-man nu-mer-als. Wikipedia
, The Free En-cy-clo-pe-dia.
Underfull \hbox (badness 10000) in paragraph at lines 11852--11856
[][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / w / index . php ? title 
= Roman _ numerals & oldid =
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11870--11870
 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:6))) # + NA with a warni
ng for "IIIIII"[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11875--11875
 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in  
{1,2,..,3999} :[] 
[2133] [2134]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 12028--12028
 []\T1/pcr/m/n/10 4. |     \-base:::tryCatchOne(expr, names, parentenv, handler
s[[1L]])[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 12029--12029
 []\T1/pcr/m/n/10 5. |       \-base:::doTryCatch(return(expr), name, parentenv,
 handler)[] 
[2135]
Underfull \hbox (badness 10000) in paragraph at lines 12131--12133
[]\T1/ptm/m/n/10 The chap-ter on ``Tidy-ing and pro-fil-ing R code'' in `Writ-i
ng R Ex-ten-sions':
[2136]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12164--12164
 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold
 = 0) 
[2137] [2138]
Underfull \hbox (badness 1917) in paragraph at lines 12297--12300
[]\T1/ptm/m/n/10 If `[]\T1/pcr/m/n/10 --default-packages[]\T1/ptm/m/n/10 ' is n
ot used, then []\T1/pcr/m/n/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron-me
nt vari-
Underfull \hbox (badness 4328) in paragraph at lines 12297--12300
\T1/ptm/m/n/10 able []\T1/pcr/m/n/10 R_SCRIPT_DEFAULT_PACKAGES[]\T1/ptm/m/n/10 
. If this is set, then it takes prece-dence over
Overfull \hbox (106.98032pt too wide) in paragraph at lines 12320--12320
 []\T1/pcr/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr
aphics,stats -e \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 sessionInfo()\TS1/pcr/m/n/9 '[] 
[2139] [2140]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 12412--12412
 []            \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news",
 "Rfunctions",[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 12413--12413
 []                         \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig
nettes"),[] 
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 []            \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s
ubject",[] 
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 []                       \T1/pcr/m/n/10 "subject:descending", "size", "size:de
scending"),[] 
Underfull \hbox (badness 6725) in paragraph at lines 12439--12447
\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 score[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 date:
late []\T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first,
Underfull \hbox (badness 2662) in paragraph at lines 12439--12447
\T1/ptm/m/n/10 der, []\T1/pcr/m/n/10 subject:descending []\T1/ptm/m/n/10 for re
-verse al-pha-bet-i-cal or-der, []\T1/pcr/m/n/10 size []\T1/ptm/m/n/10 or
[2141]
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 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes","
Rfunctions"))[] 
[2142]
Underfull \hbox (badness 1377) in paragraph at lines 12540--12543
[]\T1/ptm/m/n/10 Character string spec-i-fy-ing whether emacs style ([]\T1/pcr/
m/n/10 "etags"[]\T1/ptm/m/n/10 ) or vi style
Underfull \hbox (badness 3646) in paragraph at lines 12575--12577
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p
tm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / www . gnu . org / software /
[2143]
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 []             \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F
ALSE, ...)[] 
[2144] [2145]
Underfull \hbox (badness 10000) in paragraph at lines 12795--12799
[]\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 stylepath []\T1/ptm/m/n/10 i
s now taken from the en-vi-ron-ment vari-able
[2146]
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[]\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y
ou can add a
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[]\T1/ptm/m/n/10 The use of fancy quotes (see [][][]\T1/pcr/m/n/10 sQuote[][][]
[]\T1/ptm/m/n/10 ) can cause prob-lems when set-ting \T1/phv/m/n/10 R \T1/ptm/m
/n/10 out-put in
[2147] [2148]
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 []                 \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa
rent")[] 
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[]\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func-
tions can be ex-e-cuted. If
[2149]
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[]\T1/ptm/m/n/10 The file `\T1/pcr/m/n/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ures
 the R GUI ([]\T1/pcr/m/n/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows
 and
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[]\T1/ptm/m/n/10 At the time of writ-ing `\T1/pcr/m/n/10 Rdevga\T1/ptm/m/n/10 '
 con-fig-ured the map-ping of font num-bers to fonts, and
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[]\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in
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end of report[] 
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[]\T1/ptm/m/n/10 Repository `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' is treated
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fix)) 
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[]\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t
o the Win-dows API call
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[]\T1/pcr/m/n/10 getSrcFilename []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 getSrcDir
ectory []\T1/ptm/m/n/10 re-turn char-ac-ter vec-tors hold-ing the file-
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ive
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[][][]\T1/pcr/m/n/10 options[][][]("width")[]\T1/ptm/m/n/10 ; note that this ha
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[]\T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 options[][][][]\T1/ptm/m/n/10 ) whic
h de-faults to []\T1/pcr/m/n/10 "no" []\T1/ptm/m/n/10 for back com-pat-i-bil-it
y rea-sons;
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[]\T1/ptm/m/n/10 numeric or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 as by de-fau
lt, de-ter-min-ing the []\T1/pcr/m/n/10 nlines []\T1/ptm/m/n/10 ar-gu-ment to
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 of binary numbers[] 
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ng" non-ASCII:[] 
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e  1  (in UTF-8!):[] 
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[]\T1/ptm/m/n/10 Options other than []\T1/pcr/m/n/10 memory = "none" []\T1/ptm/
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[]\T1/ptm/m/n/10 The chap-ter on `Tidy-ing and pro-fil-ing R code' in `Writ-ing
 R Ex-ten-sions':
[2169]
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[]\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's setup func-tion. Se
e
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[][][]\T1/pcr/m/n/10 RweaveLatexSetup[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/
m/n/10 RtangleSetup[][][][]\T1/ptm/m/n/10 , re-spec-tively, for the ar-gu-
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[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fau
lt) then the avail-able syn-tax ob-jects are con-sulted in
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\T1/ptm/m/n/10 turn, and se-lected if their []\T1/pcr/m/n/10 extension []\T1/pt
m/m/n/10 com-po-nent matches (as a reg-exp) the file
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\T1/ptm/m/n/10 name. Ob-jects []\T1/pcr/m/n/10 SweaveSyntaxNoweb []\T1/ptm/m/n/
10 (with []\T1/pcr/m/n/10 extension = "[.][rsRS]nw$"[]\T1/ptm/m/n/10 ) and
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\T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/
n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on
 some plat-forms),
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\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --
exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n
/10 ' (and sim-i-lar) and on Win-dows
[2173]
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[]\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p
cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able
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[]\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t
o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment 
vari-able
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[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ f
ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / pubs .
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\T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht
ml # tag _ 20 _ 92 _
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 []             \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc,
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 []             \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc,
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[2184]
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[]\T1/ptm/m/n/10 Download method, see [][][]\T1/pcr/m/n/10 download.file[][][][
]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL
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\T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/
m/n/10 which makes an in-ter-nal call to
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[]\T1/ptm/m/n/10 by de-fault all in-stalled pack-ages, [][][]\T1/pcr/m/n/10 ins
talled.packages[][][](lib.loc =
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[]\T1/ptm/m/n/10 Arguments such as []\T1/pcr/m/n/10 destdir []\T1/ptm/m/n/10 an
d []\T1/pcr/m/n/10 dependencies []\T1/ptm/m/n/10 to be
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\T1/ptm/m/n/10 passed to [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/
m/n/10 and []\T1/pcr/m/n/10 ignore_repo_cache[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 max_repo_cache_age []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 noCac
he []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 available.packages[][][]
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[]\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and
 in-stall. See
[2185]
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[]\T1/pcr/m/n/10 available = NULL []\T1/ptm/m/n/10 make a call to []\T1/pcr/m/n
/10 available.packages(contriburl =
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\T1/pcr/m/n/10 contriburl, method = method) []\T1/ptm/m/n/10 and hence by de-fa
ult fil-ters on \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion, OS type
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[]\T1/ptm/m/n/10 Take care when us-ing []\T1/pcr/m/n/10 dependencies []\T1/ptm/
m/n/10 (passed to [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 )
 with
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[][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pa
ckages[][][][]\T1/ptm/m/n/10 ,
[2186]
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 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/
csb/ch3a.txt") 
[2187] [2188] [2189]
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[][][]\T1/pcr/m/n/10 browseVignettes[][][] []\T1/ptm/m/n/10 for an HTML-based v
i-gnette browser; [][][]\T1/pcr/m/n/10 RShowDoc[][][]("\T1/ptm/m/sl/10 basename
\T1/pcr/m/n/10 ",
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 []\T1/pcr/m/n/9 ## Note that \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 package = *\TS1/pcr
/m/n/9 ' \T1/pcr/m/n/9 is much faster in the case of many installed packages:[]
 
[2191]
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 []                      \T1/pcr/m/n/9 lm(weight ~ (Time + I(Time^2)) * Diet, d
ata = DAT)))[] 
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[]\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i
s se-lected, or
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 winMenuDel []\T1/ptm/m/n/10 func-tion wil
l delete a menu and all of its items and sub-menus.
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[]\T1/ptm/m/n/10 arguments to []\T1/pcr/m/n/10 write.table[]\T1/ptm/m/n/10 : []
\T1/pcr/m/n/10 append[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 col.names[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 sep[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dec []\T1/ptm/m/n
/10 and
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[]\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec-
tion e.g. []\T1/pcr/m/n/10 file =
[2198] [2199] [2200]) [2201] [2202] (./KernSmooth-pkg.tex
Chapter 15.
[2203]
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 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat
e = TRUE) 
[2204] [2205] [2206] [2207] [2208]
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 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun
 = 0.05, 
[2209] [2210] [2211] [2212]) (./MASS-pkg.tex
Chapter 16.
[2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] [2222] [2223]
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 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b
eav2$hours/24))[] 
[2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233]pdfTeX war
ning (ext4): destination with the same identifier (name{Rfn.confint.glm}) has b
een already used, duplicate ignored
<to be read again> 
                   \relax 
l.1479 ...{confint.glm}{confint-MASS}{confint.glm}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.confint.nls}) has been already used, d
uplicate ignored
<to be read again> 
                   \relax 
l.1480 ...{confint.nls}{confint-MASS}{confint.nls}
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"F"),[] 
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"F"),[] 
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[]\T1/ptm/m/n/10 further ar-gu-ments for []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10
 and graph-i-cal pa-ram-e-ters. Note that
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[]\T1/pcr/m/n/10 "gamma"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "geometric"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "log-normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lo
gnormal"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "negative binomi
al"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n
/10 "Poisson"[]\T1/ptm/m/n/10 ,
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[]\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i-
na-tor ex-ceeds
[2255] [2256] [2257]
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SE, ...)[] 
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 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist =
 "exponential")[] 
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[]\T1/ptm/m/n/10 The va-ri-ety of bar-ley ([]\T1/pcr/m/n/10 "manchuria"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "svansota"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "velv
et"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trebi" []\T1/ptm/m/n/10 and
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 []        \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n",
 ...)[] 
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 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model 
= FALSE, 
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 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP
ACK = FALSE) 
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 []\T1/pcr/m/n/10 negative.binomial(theta = stop("\TS1/pcr/m/n/10 '\T1/pcr/m/n/
10 theta\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 must be specified"), link = "log") 
[2296] [2297]pdfTeX warning (ext4): destination with the same identifier (name{
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<to be read again> 
                   \relax 
l.6086 ...sical N, P, K Factorial Experiment}{npk}
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ose = TRUE)))[] 
[2304]
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 []     \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr
ellis"))[] 
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 []     \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c
auchit"))[] 
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[]\T1/ptm/m/n/10 The log-log and com-ple-men-tary log-log links are the in-crea
s-ing func-tions $\OML/cmm/m/it/10 F[]\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 p\OT1/c
mr/m/n/10 ) =
[2311]
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 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da
ta = housing)[] 
[2312] [2313]
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[]\T1/ptm/m/n/10 the di-men-sion of the space to be used. If this is less than 
[]\T1/pcr/m/n/10 min(p,
[2314] [2315]
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 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam
p = "exact")[] 
[2316]
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 []        \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC
V"), ...)[] 
[2317]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.pro
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[]\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i-
na-tor ex-ceeds
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 []    \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control =
 NULL)[] 
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[]\T1/ptm/m/n/10 A func-tion to spec-ify the ac-tion to be taken if []\T1/pcr/m
/n/10 NA[]\T1/ptm/m/n/10 s are found. The
[2324] [2325] [2326] [2327] [2328] [2329] [2330] [2331] [2332] [2333] [2334]
[2335] [2336] [2337] [2338] [2339] [2340] [2341] [2342] [2343]
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 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS
E, ...)[] 
[2344]
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[]\T1/ptm/m/n/10 ``Fold your arms! Which is on top'' (Fac-tor, with lev-els []\
T1/pcr/m/n/10 "R on L"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "L on R"[]\T1/ptm/m/n
/10 ,
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[]\T1/ptm/m/n/10 how much the stu-dent smokes. (Fac-tor, lev-els []\T1/pcr/m/n/
10 "Heavy"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Regul" []\T1/ptm/m/n/10 (reg-u-l
arly),
[2345]
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 []\T1/pcr/m/n/10 theta.md(y, mu, dfr, weights, limit = 20, eps = .Machine$doub
le.eps^0.25) 
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 []\T1/pcr/m/n/10 theta.ml(y, mu, n, weights, limit = 10, eps = .Machine$double
.eps^0.25,[] 
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 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub
le.eps^0.25)[] 
[2346] [2347] [2348] [2349] [2350]
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[]\T1/ptm/m/n/10 The orig-i-nal data are avail-able at [][]$\T1/pcr/m/n/10 http
s : / / lib . stat . cmu . edu / datasets / 1993 .
[2351] [2352] [2353] [2354] [2355] [2356] [2357] [2358]) (./Matrix-pkg.tex
Chapter 17.
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[]\T1/ptm/m/n/10 Note that the cur-rent im-ple-men-ta-tion de-tails are sub-jec
t to change, and if you
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\T1/ptm/m/n/10 con-sider work-ing with these classes, please con-tact the pack-
age main-tain-ers
[2359]
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[]\T1/ptm/m/n/10 This is cur-rently ex-per-i-men-tal and not yet used for our o
wn code. Please con-tact us
[2360]
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[]\T1/ptm/m/n/10 in gen-eral an ar-bi-trary num-ber of \T1/phv/m/n/10 R \T1/ptm
/m/n/10 ob-jects; here, when the first is
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\T1/ptm/m/n/10 an []\T1/pcr/m/n/10 "[][]abIndex[][][]" []\T1/ptm/m/n/10 vec-tor
, these ar-gu-ments will be con-cate-nated to a new
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.all.equal
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.182 ...{all.equal}{all.equal-methods}{all.equal}
                                                  
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[]\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing
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[]\T1/ptm/m/n/10 There are more meth-ods, no-tably also for []\T1/pcr/m/n/10 "[
][]sparseVector[][][]"[]\T1/ptm/m/n/10 's, see
[2361]
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[]\T1/ptm/m/n/10 optional ar-gu-ments passed to the de-fault method for generic
 func-tion
[2362] [2363]
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 []   \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym
metry property[] 
[2364]
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[]\T1/ptm/m/n/10 logical; if true the re-sult will be sym-met-ric (in-her-it-in
g from class
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[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/
m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc
r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse
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 []\T1/pcr/m/n/9 s1 <- bandSparse(13, k = -c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
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 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k =  c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
[2365]
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 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20, 1), rpois(20, 3))[
c(1:3, 2:3, 3:2)],[] 
[2366]
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Fast version of Matrix :: .bd
iag() -- for the case of *many*  (k x k) matrices:[] 
[2367]
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @param lmat list(<mat1>, <mat
2>, ....., <mat_N>)  where each mat_j is a  k x k \TS1/pcr/m/n/9 '\T1/pcr/m/n/9
 matrix\TS1/pcr/m/n/9 '[] 
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 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @return a sparse (N*k x N*k) 
matrix of class  \code{"\linkS4class{dgCMatrix}"}.[] 
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 []        \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 i :\TS1/pcr/m/n/9 ' \
T1/pcr/m/n/9 maybe there\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s a faster way (w/o matri
x indexing), but elegant?[] 
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 []        \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len(
N), each=k)]),[] 
[2368]
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 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero
s" to drop0()[] 
[2369]
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[]\T1/pcr/m/n/10 new("pBunchKaufman", ...)[]\T1/ptm/m/n/10 , but they are more 
typ-i-cally ob-tained as the value of
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[]\T1/pcr/m/n/10 signature(from = "BunchKaufman", to = "dtrMatrix")[]\T1/ptm/m/
n/10 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "pBunchKaufman", to = "dtpMatrix")[]\T1/ptm/m
/n/10 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "p?BunchKaufman", logarithm =
[2370]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
[2371]
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[]\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing
 from vir-tual class
[2372]
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 []\T1/pcr/m/n/9 stopifnot(all.equal(as(A, "matrix"), as(Reduce(\TS1/cmtt/m/n/9
 `\T1/pcr/m/n/9 %*%\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 , e.bk.A), "matrix")))[] 
[2373]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbi
nd2.Rdash.methods}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1185 ... on cbind2/rbind2}{cbind2.Rdash.methods}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.cbind2}) has been already used, duplic
ate ignored
<to be read again> 
                   \relax 
l.1186 \aliasA{cbind2}{cbind2-methods}{cbind2}
                                              pdfTeX warning (ext4): destinatio
n with the same identifier (name{Rfn.rbind2}) has been already used, duplicate 
ignored
<to be read again> 
                   \relax 
l.1195 \aliasA{rbind2}{cbind2-methods}{rbind2}
                                              pdfTeX warning (ext4): destinatio
n with the same identifier (name{Rfn.rbind2.Rdash.methods}) has been already us
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<to be read again> 
                   \relax 
l.1204 ...s}{cbind2-methods}{rbind2.Rdash.methods}
                                                   [2374]
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[]\T1/ptm/m/n/10 Our class def-i-ni-tion help pages men-tion-ing []\T1/pcr/m/n/
10 cbind2() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 rbind2() []\T1/ptm/m/n/10 met
h-ods:
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[]\T1/ptm/m/n/10 The im-ple-men-ta-tion of class []\T1/pcr/m/n/10 CHMfactor []\
T1/ptm/m/n/10 is based on CHOLMOD's C-level
[2375] [2376]
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[]\T1/pcr/m/n/10 signature(from = "CHMfactor", logarithm = "logical")[]\T1/ptm/
m/n/10 : be-
[2377]
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[]\T1/pcr/m/n/10 signature(update = ., C = ., object = "CHMfactor")[]\T1/ptm/m/
n/10 : see
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
[2378]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
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 []    \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(e.ch.A, L1 %*%
 D %*% L1.))[] 
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 []    \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(E.ch.A, L  %*%
         L. ))[] 
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 []\T1/pcr/m/n/9 u2 <- update(ch.A, t(M), mult = sqrt(2)) # updating with cross
prod(M), not M[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol}) ha
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<to be read again> 
                   \relax 
l.1625 \aliasA{chol}{chol-methods}{chol}
                                         [2379]
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
[2380] [2381]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.chol2inv}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1854 ...sA{chol2inv}{chol2inv-methods}{chol2inv}
                                                   [2382] [2383]
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[]\T1/ptm/m/n/10 a nu-meric vec-tor of length []\T1/pcr/m/n/10 n*n []\T1/ptm/m/
n/10 ([]\T1/pcr/m/n/10 Cholesky[]\T1/ptm/m/n/10 ) or []\T1/pcr/m/n/10 n*(n+1)/2
 []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 pCholesky[]\T1/ptm/m/n/10 ), where
Underfull \hbox (badness 1226) in paragraph at lines 2005--2008
[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 CholeskyFactorization[][][][]\T1/pt
m/m/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1
/ptm/m/n/10 , by class
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[]\T1/ptm/m/n/10 Objects can be gen-er-ated di-rectly by calls of the form []\T
1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or
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[]\T1/pcr/m/n/10 signature(from = "pCholesky", to = "dtpMatrix")[]\T1/ptm/m/n/1
0 : re-turns a
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[]\T1/pcr/m/n/10 signature(from = "p?Cholesky", logarithm = "logical")[]\T1/ptm
/m/n/10 :
[2384]
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
[2385]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
[2386]
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[]\T1/ptm/m/n/10 a [][]fi-nite[][][] num-ber. The ma-trix that is fac-tor-ized 
is []\T1/pcr/m/n/10 A + Imult *
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\T1/pcr/m/n/10 - diag(abs(A))) []\T1/ptm/m/n/10 en-sures that []\T1/pcr/m/n/10 
A + Imult * diag(nrow(A)) []\T1/ptm/m/n/10 is di-
[2387]
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[]\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing
 from vir-tual class
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\T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt
ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and
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[]\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g
ithub . com / DrTimothyAldenDavis /
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\T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p
cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing
[2388] [2389]
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 []     \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm =  TRUE, super = FALSE, L
DL =  TRUE),[] 
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 []          \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm =  TRUE, super = FALSE, L
DL = FALSE),[] 
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 []          \T1/pcr/m/n/9 super0 = Cholesky(A4, perm =  TRUE, super =  TRUE   
          )),[] 
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 []     \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = FALSE, super = FALSE, L
DL =  TRUE),[] 
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 []          \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = FALSE, super = FALSE, L
DL = FALSE),[] 
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 []          \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = FALSE, super =  TRUE   
          )))[] 
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 []\T1/pcr/m/n/9 rapply2 <- function(object, f, ...) rapply(object, f, , , how 
= "list", ...)[] 
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 []          \T1/pcr/m/n/9 x = c(1, 6, 38, 10, 60, 103, -4, 6, -32, -247, -2, -
16, -128, -2, -67))[] 
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 []  \T1/pcr/m/n/9 show(a1 <- sparseMatrix(i= c(1:4),   j=c(2:4,1),   x = 2,   
 dimnames=dns))[] 
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 []  \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE,
 dimnames=dns))[] 
[2392]
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 []  \T1/pcr/m/n/9 a. <- sparseMatrix(i=4:1, j=1:4, dimnames=list(n4, n4), repr
="T") # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] 
[2393]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.col
Means}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.2696 ...asA{colMeans}{colSums-methods}{colMeans}
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<to be read again> 
                   \relax 
l.2704 \aliasA{colSums}{colSums-methods}{colSums}
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<to be read again> 
                   \relax 
l.2711 ...asA{rowMeans}{colSums-methods}{rowMeans}
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                   \relax 
l.2719 \aliasA{rowSums}{colSums-methods}{rowSums}
                                                 
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[]\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sparse, i.e., i
n-her-it-ing from
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\T1/ptm/m/n/10 class [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/n/10 . 
Only ap-pli-ca-ble when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is in-her-it-ing fr
om a
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[][][]\T1/pcr/m/n/10 dimnames[][][](x) []\T1/ptm/m/n/10 are only kept (as [][][
]\T1/pcr/m/n/10 names[][][](v)[]\T1/ptm/m/n/10 ) when the re-sult-ing []\T1/pcr
/m/n/10 v []\T1/ptm/m/n/10 is [][][]\T1/pcr/m/n/10 numeric[][][][]\T1/ptm/m/n/1
0 , since
[2394] [2395]
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[]\T1/ptm/m/n/10 a num-ber $\OML/cmm/m/it/10 > \OT1/cmr/m/n/10 0$\T1/ptm/m/n/10
 , the es-ti-mated (1-norm) con-di-tion num-ber $[]$; when
[2396] [2397] [2398] [2399] [2400]
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[]\T1/pcr/m/n/10 signature(from = "denseLU", logarithm = "logical")[]\T1/ptm/m/
n/10 : com-
[2401]
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3352--3352
 []              \T1/pcr/m/n/9 new(  "pMatrix", Dim = c(n, n), Dimnames = c(dn[
1L], list(NULL)),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3355--3355
 []              \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = list(
NULL, NULL),[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3358--3358
 []              \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = c(lis
t(NULL), dn[2L]),[] 
[2402]
Underfull \hbox (badness 7379) in paragraph at lines 3486--3488
[]\T1/pcr/m/n/10 signature(x = "dgCMatrix")[]\T1/ptm/m/n/10 : com-putes the LU 
de-com-po-si-tion of a square
[2403] [2404] [2405]
Underfull \hbox (badness 4846) in paragraph at lines 3707--3711
[]\T1/ptm/m/n/10 Note that both []\T1/pcr/m/n/10 new(.) []\T1/ptm/m/n/10 and []
[][]\T1/pcr/m/n/10 spMatrix[][][] []\T1/ptm/m/n/10 con-struc-tors for []\T1/pcr
/m/n/10 "dgTMatrix" []\T1/ptm/m/n/10 (and other
Underfull \hbox (badness 2717) in paragraph at lines 3712--3716
[]\T1/ptm/m/n/10 However this means that a ma-trix typ-i-cally can be stored in
 more than one pos-si-ble
[2406]
Underfull \hbox (badness 5231) in paragraph at lines 3757--3762
[]\T1/ptm/m/n/10 Construct a for-mally di-ag-o-nal [][][]\T1/pcr/m/n/10 Matrix[
][][][]\T1/ptm/m/n/10 , i.e., an ob-ject in-her-it-ing from vir-tual class
Overfull \hbox (84.78088pt too wide) in paragraph at lines 3768--3768
 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri 
= TRUE, kind, cols)[] 
[2407]
Underfull \hbox (badness 10000) in paragraph at lines 3824--3827
[]\T1/pcr/m/n/10 .trDiagonal() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 .symDiagon
al() []\T1/ptm/m/n/10 are sim-ple wrap-pers, for
Underfull \hbox (badness 6792) in paragraph at lines 3824--3827
[]\T1/pcr/m/n/10 .sparseDiagonal(shape = "t") []\T1/ptm/m/n/10 and []\T1/pcr/m/
n/10 .sparseDiagonal(shape = "s")[]\T1/ptm/m/n/10 , re-spec-
[2408]
Underfull \hbox (badness 3646) in paragraph at lines 3901--3904
[]\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 dimnames[][][][]\T1/ptm/m/n/10 , a []
[][]\T1/pcr/m/n/10 list[][][][]\T1/ptm/m/n/10 , see the [][][]\T1/pcr/m/n/10 Ma
trix[][][] []\T1/ptm/m/n/10 class de-scrip-tion. Typ-i-cally
Underfull \hbox (badness 6542) in paragraph at lines 3936--3940
[]\T1/pcr/m/n/10 signature(x = "diagonalMatrix")[]\T1/ptm/m/n/10 : all these gr
oup meth-ods re-turn a
Underfull \hbox (badness 4518) in paragraph at lines 3945--3951
[]\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 
: the re-sult is from class
[2409]
Underfull \hbox (badness 10000) in paragraph at lines 3952--3956
[]\T1/pcr/m/n/10 (object = "diagonalMatrix")[]\T1/ptm/m/n/10 : Re-turns an ob-j
ect of S3 class
Underfull \hbox (badness 2318) in paragraph at lines 3962--3966
[][][]\T1/pcr/m/n/10 Diagonal[][][]() []\T1/ptm/m/n/10 as con-struc-tor of thes
e ma-tri-ces, and [][][]\T1/pcr/m/n/10 isDiagonal[][][][]\T1/ptm/m/n/10 . [][][
]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 and
[2410] [2411] [2412]
Underfull \hbox (badness 10000) in paragraph at lines 4219--4221
[]\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 :
 this group con-tains
[2413] [2414]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 4360--4360
 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe
rent from the random one[] 
[2415]
Underfull \hbox (badness 2469) in paragraph at lines 4474--4477
[]\T1/pcr/m/n/10 signature(x = "dpoMatrix")[]\T1/ptm/m/n/10 : Re-turns the [][]
[]\T1/pcr/m/n/10 determinant[][][] []\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 x[]\T1/
ptm/m/n/10 , via
[2416]
Underfull \hbox (badness 10000) in paragraph at lines 4497--4502
[]\T1/ptm/m/n/10 Currently the va-lid-ity meth-ods for these classes such as
Underfull \hbox (badness 2020) in paragraph at lines 4497--4502
[][][]\T1/pcr/m/n/10 getValidity[][][](getClass("dpoMatrix")) []\T1/ptm/m/n/10 
for ef-fi-ciency rea-sons only check the di-
Underfull \hbox (badness 1748) in paragraph at lines 4503--4512
\T1/pcr/m/n/10 error=identity), "error") []\T1/ptm/m/n/10 . In-deed, when \T1/p
tm/m/it/10 co-erc-ing \T1/ptm/m/n/10 to these classes, a ver-sion
Underfull \hbox (badness 1590) in paragraph at lines 4503--4512
\T1/ptm/m/n/10 of [][][]\T1/pcr/m/n/10 Cholesky[][][]() []\T1/ptm/m/n/10 or [][
][]\T1/pcr/m/n/10 chol[][][]() []\T1/ptm/m/n/10 is typ-i-cally used, e.g., see 
[]\T1/pcr/m/n/10 selectMethod("coerce",
Underfull \hbox (badness 6675) in paragraph at lines 4559--4566
[]\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 Matrix[][][][]\T1/ptm/m/n/10 , typ-i-ca
lly in-her-it-ing from vir-tual class [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]
\T1/ptm/m/n/10 .
Underfull \hbox (badness 6493) in paragraph at lines 4559--4566
[][][]\T1/pcr/m/n/10 denseMatrix[][][] []\T1/ptm/m/n/10 and tra-di-tional vec-t
ors and ma-tri-ces are co-erced to
[2417]
Underfull \hbox (badness 10000) in paragraph at lines 4574--4582
[]\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing if the re-sult must in-herit from vi
r-tual class
Underfull \hbox (badness 1365) in paragraph at lines 4574--4582
[][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 . If []\T1/pcr/m/n/10 
FALSE []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 in-her-its from 
[][][]\T1/pcr/m/n/10 RsparseMatrix[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 4597--4600
[]\T1/ptm/m/n/10 Function [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/
10 , for con-struct-ing ob-jects in-her-it-ing from vir-tual class
[2418]
Underfull \hbox (badness 10000) in paragraph at lines 4641--4645
[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("dsCMatrix", ...) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 2103) in paragraph at lines 4641--4645
[]\T1/pcr/m/n/10 new("dsTMatrix", ...)[]\T1/ptm/m/n/10 , or au-to-mat-i-cally v
ia e.g., []\T1/pcr/m/n/10 as(*, "symmetricMatrix")[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1571) in paragraph at lines 4691--4694
[]\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 
: Re-turns (and stores) the
[2419] [2420]
Underfull \hbox (badness 1221) in paragraph at lines 4834--4837
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "dMatrix"[]\T1/ptm/m/n/10 , by class []
\T1/pcr/m/n/10 "dsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "sparse
Matrix"[]\T1/ptm/m/n/10 , by classes
Underfull \hbox (badness 1400) in paragraph at lines 4844--4847
[]\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10
 : if []\T1/pcr/m/n/10 uplo ==
[2421]
Underfull \hbox (badness 10000) in paragraph at lines 4896--4898
[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("dsyMatrix", ...) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 1365) in paragraph at lines 4932--4935
[]\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10
 , or []\T1/pcr/m/n/10 x = "dsyMatrix"
[2422]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4978--4978
 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ 
internally :[] 
[2423] [2424]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5084--5084
 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim 
= c(5L, 5L),[] 
Underfull \hbox (badness 3635) in paragraph at lines 5139--5143
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ddenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "triangularMatrix"[]\T1/ptm/m/n/10 , di-rectly. Cla
ss
Underfull \hbox (badness 10000) in paragraph at lines 5148--5151
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
Underfull \hbox (badness 10000) in paragraph at lines 5151--5155
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n
/10 : the
[2425] [2426] [2427] [2428]
Underfull \hbox (badness 10000) in paragraph at lines 5399--5401
[]\T1/ptm/m/n/10 a ma-trix fac-tor-iza-tion, typ-i-cally in-her-it-ing from vir
-tual class
Overfull \hbox (29.27832pt too wide) in paragraph at lines 5418--5418
 []    \T1/pcr/m/n/10 all.equal(as(x, "matrix"), as(Reduce(\TS1/cmtt/m/n/10 `\T
1/pcr/m/n/10 %*%\TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 , expand2(y)), "matrix")) 
Overfull \hbox (37.71342pt too wide) in alignment at lines 5449--5449
 [] [] 
[2429]
Underfull \hbox (badness 7064) in paragraph at lines 5477--5494
[]\T1/pcr/m/n/10 signature(x = "p?BunchKaufman")[]\T1/ptm/m/n/10 : ex-pands the
 fac-tor-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 =
Underfull \hbox (badness 3000) in paragraph at lines 5506--5513
[]\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : ex-pands the fac-to
r-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = \OML/cmm/m/it/10 P[]LU$ \T1/pt
m/m/n/10 as
Underfull \hbox (badness 2735) in paragraph at lines 5522--5529
[]\T1/pcr/m/n/10 signature(x = "CHMfactor")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/
10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L)[]\T1/p
tm/m/n/10 .
Underfull \hbox (badness 1337) in paragraph at lines 5529--5544
[]\T1/pcr/m/n/10 signature(x = "sparseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/1
0 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L, U,
Underfull \hbox (badness 2680) in paragraph at lines 5529--5544
\T1/pcr/m/n/10 Q)[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 expand(x)[["Q"]] []\T1/ptm
/m/n/10 and []\T1/pcr/m/n/10 expand2(x)[["P2."]] []\T1/ptm/m/n/10 rep-re-sent t
he same per-
Underfull \hbox (badness 5374) in paragraph at lines 5529--5544
\T1/ptm/m/n/10 mu-ta-tion ma-trix $\OML/cmm/m/it/10 P[]$ \T1/ptm/m/n/10 but hav
e op-po-site []\T1/pcr/m/n/10 margin []\T1/ptm/m/n/10 slots and in-verted []\T1
/pcr/m/n/10 perm []\T1/ptm/m/n/10 slots.
Underfull \hbox (badness 2073) in paragraph at lines 5544--5549
[]\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/10
 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(L, U, P)[]\T1/
ptm/m/n/10 .
[2430] [2431] [2432]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5752--5752
 []\T1/pcr/m/n/9 str(pores <- readMM(system.file("external/pores_1.mtx", packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5753--5753
 []\T1/pcr/m/n/9 str(utm   <- readHB(system.file("external/utm300.rua" , packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5754--5754
 []\T1/pcr/m/n/9 str(lundA <- readMM(system.file("external/lund_a.mtx" , packag
e = "Matrix")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5755--5755
 []\T1/pcr/m/n/9 str(lundA <- readHB(system.file("external/lund_a.rsa" , packag
e = "Matrix")))[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5756--5756
 []\T1/pcr/m/n/9 ## https://math.nist.gov/MatrixMarket/data/Harwell-Boeing/coun
terx/counterx.htm[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5757--5757
 []\T1/pcr/m/n/9 str(jgl   <- readMM(system.file("external/jgl009.mtx" , packag
e = "Matrix")))[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5763--5763
 []\T1/pcr/m/n/9 u. <- url("https://www.cise.ufl.edu/research/sparse/RB/Boeing/
msc00726.tar.gz")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5768--5768
 []\T1/pcr/m/n/9 ## Store as MatrixMarket (".mtx") file, here inside temporary 
dir./folder:[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5771--5771
 []\T1/pcr/m/n/9 file.info(MMfile)[,c("size", "ctime")] # (some confirmation of
 the file\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s)[] 
[2433]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 5781--5781
 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume
nts to sparseMatrix():[] 
[2434]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5843--5843
 []    \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans =  TRUE, left =  TRUE),  
crossprod(L, y))[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5844--5844
 []    \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans =  TRUE, left = FALSE), t
crossprod(y, L))[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 5923--5923
 []\T1/pcr/m/n/10 .diag2dense(from, kind = ".", shape = "t", packed = FALSE, up
lo = "U")[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 5925--5925
 []\T1/pcr/m/n/10 .m2dense(from, class = ".ge", uplo = "U", diag = "N", trans =
 FALSE)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 5928--5928
 []\T1/pcr/m/n/10 .diag2sparse(from, kind = ".", shape = "t", repr = "C", uplo 
= "U")[] 
[2435]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 5930--5930
 []\T1/pcr/m/n/10 .m2sparse(from, class = ".gC", uplo = "U", diag = "N", trans 
= FALSE)[] 
Underfull \hbox (badness 10000) in paragraph at lines 6000--6002
[]\T1/ptm/m/n/10 a string in []\T1/pcr/m/n/10 c("trace", "sumLog", "prod", "min
", "max",
[2436]
Underfull \hbox (badness 10000) in paragraph at lines 6073--6079
[][]\T1/pcr/m/n/10 .solve.dgC.*(a, b)[]\T1/ptm/b/n/10 :  []\T1/pcr/m/n/10 .solv
e.dgC.lu(a, b) []\T1/ptm/m/n/10 needs a square ma-trix []\T1/pcr/m/n/10 a[]\T1/
ptm/m/n/10 .
Underfull \hbox (badness 10000) in paragraph at lines 6073--6079
[]\T1/pcr/m/n/10 .solve.dgC.qr(a, b) []\T1/ptm/m/n/10 needs a ``long'' ma-trix 
[]\T1/pcr/m/n/10 a[]\T1/ptm/m/n/10 , with []\T1/pcr/m/n/10 nrow(a) >= ncol(a)[]
\T1/ptm/m/n/10 .
[2437]
Underfull \hbox (badness 10000) in paragraph at lines 6087--6096
[][]\T1/pcr/m/n/10 .updateCHMfactor(object, parent, mult)[]\T1/ptm/b/n/10 :  []
\T1/pcr/m/n/10 .updateCHMfactor []\T1/ptm/m/n/10 up-
Underfull \hbox (badness 10000) in paragraph at lines 6087--6096
\T1/ptm/m/n/10 dates []\T1/pcr/m/n/10 object []\T1/ptm/m/n/10 with the re-sult 
of Cholesky fac-tor-iz-ing []\T1/pcr/m/n/10 F(parent) + mult[1] *
Underfull \hbox (badness 2443) in paragraph at lines 6087--6096
\T1/pcr/m/n/10 diag(nrow(parent))[]\T1/ptm/m/n/10 , i.e., []\T1/pcr/m/n/10 F(pa
rent) []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 mult[1] []\T1/ptm/m/n/10 times the
 iden-tity ma-trix,
[2438] [2439] [2440] [2441]pdfTeX warning (ext4): destination with the same ide
ntifier (name{Rfn.image}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6399 \aliasA{image}{image-methods}{image}
                                            [2442] [2443]
Underfull \hbox (badness 4120) in paragraph at lines 6495--6498
[]\T1/ptm/m/n/10 All meth-ods cur-rently end up call-ing the method for the [][
][]\T1/pcr/m/n/10 dgTMatrix[][][] []\T1/ptm/m/n/10 class. Use
Overfull \hbox (47.58038pt too wide) in paragraph at lines 6514--6514
 []\T1/pcr/m/n/9 stopifnot(!is.null(leg <- imgC$legend), is.list(leg$right)) # 
failed for 2 days ..[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6534--6534
 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col
/row) indices:[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 6540--6540
 [] \T1/pcr/m/n/9 I2 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE,    
    border.col=NA)[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 6541--6541
 [] \T1/pcr/m/n/9 I3 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd
=2, border.col=NA)[] 
Overfull \hbox (144.78027pt too wide) in paragraph at lines 6545--6545
 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor
der.col = adjustcolor("skyblue", 1/2))[] 
[2444]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6553--6553
 []\T1/pcr/m/n/9 image(USCounties, useRaster = TRUE) # should not suffer from a
nti-aliasing[] 
Overfull \hbox (36.7804pt too wide) in paragraph at lines 6556--6556
 []   \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi
ly zoom in and out[] 
[2445]
Underfull \hbox (badness 10000) in paragraph at lines 6684--6687
[]\T1/pcr/m/n/10 signature(x = "indMatrix", y = "Matrix") []\T1/ptm/m/n/10 and 
oth-ers listed by
Underfull \hbox (badness 1286) in paragraph at lines 6684--6687
[]\T1/pcr/m/n/10 showMethods("%*%", classes = "indMatrix")[]\T1/ptm/m/n/10 : ma
-trix prod-ucts im-ple-mented
Underfull \hbox (badness 10000) in paragraph at lines 6687--6690
[]\T1/pcr/m/n/10 signature(from = "numeric", to = "indMatrix")[]\T1/ptm/m/n/10 
: sup-port-ing typ-i-cal
Underfull \hbox (badness 3375) in paragraph at lines 6690--6695
[]\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : s
up-port-ing []\T1/pcr/m/n/10 indMatrix
Underfull \hbox (badness 4156) in paragraph at lines 6701--6703
[]\T1/pcr/m/n/10 signature(x = "indMatrix")[]\T1/ptm/m/n/10 : row and
Underfull \hbox (badness 1337) in paragraph at lines 6707--6711
[]\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : 
Kro-necker prod-uct of
[2446]
Underfull \hbox (badness 1776) in paragraph at lines 6717--6726
[]\T1/ptm/m/n/10 Fabian Scheipl at `\T1/pcr/m/n/10 uni-muenchen.de\T1/ptm/m/n/1
0 ', build-ing on the ex-ist-ing class [][][]\T1/pcr/m/n/10 pMatrix[][][] []\T1
/ptm/m/n/10 af-ter
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\T1/ptm/m/n/10 a nice hike's con-ver-sa-tion with Mar-tin Maech-ler. Meth-ods f
or [][][]\T1/pcr/m/n/10 crossprod[][][](x, y) []\T1/ptm/m/n/10 and
[2447]
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[]\T1/ptm/m/n/10 an in-te-ger off-set, in-di-cat-ing that the re-sult should be
 a per-mu-ta-tion of
Underfull \hbox (badness 10000) in paragraph at lines 6837--6841
[]\T1/pcr/m/n/10 invertPerm(p) []\T1/ptm/m/n/10 re-turns an in-te-ger vec-tor o
f length []\T1/pcr/m/n/10 length(p) []\T1/ptm/m/n/10 such that
Underfull \hbox (badness 4441) in paragraph at lines 6837--6841
[]\T1/pcr/m/n/10 p[invertPerm(p)] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 invertP
erm(p)[p] []\T1/ptm/m/n/10 are both []\T1/pcr/m/n/10 seq_along(p)[]\T1/ptm/m/n/
10 , i.e., the
[2448]
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 []\T1/pcr/m/n/9 ## Product of transpositions (1 2)(2 1)(4 3)(6 8)(10 1) = (3 4
)(6 8)(1 10)[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.anyNA}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6888 \aliasA{anyNA}{is.na-methods}{anyNA}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.is.finite}) has been already used, duplicate 
ignored
<to be read again> 
                   \relax 
l.6895 ...asA{is.finite}{is.na-methods}{is.finite}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.is.infinite}) has been already used, d
uplicate ignored
<to be read again> 
                   \relax 
l.6903 ...is.infinite}{is.na-methods}{is.infinite}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.is.na}) has been already used, duplica
te ignored
<to be read again> 
                   \relax 
l.6911 \aliasA{is.na}{is.na-methods}{is.na}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.is.nan}) has been already used, duplicate ign
ored
<to be read again> 
                   \relax 
l.6918 \aliasA{is.nan}{is.na-methods}{is.nan}
                                              [2449] [2450]pdfTeX warning (ext4
): destination with the same identifier (name{Rfn.isSymmetric}) has been alread
y used, duplicate ignored
<to be read again> 
                   \relax 
l.7077 ...etric}{isSymmetric-methods}{isSymmetric}
                                                   [2451]
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 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub
le.eps, tol1 = 8 * tol, ...)[] 
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 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub
le.eps, ...)[] 
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 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if
 not "formally"[] 
[2452]
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 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g
eneric from base[] 
[2453]
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 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even 
if not "formally"[] 
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 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames 
= FALSE) 
[2454]
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 []\T1/pcr/m/n/9 stopifnot(all(K1 <- KhatriRao(nd, zm) == 0), identical(dim(K1)
, c(12L, 4L)),[] 
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 []          \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2)
, c(12L, 4L)))[] 
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 []  \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di
mnames(Kmd)))[] 
[2455]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.kro
necker}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7453 ...kronecker}{kronecker-methods}{kronecker}
                                                   [2456]
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[]\T1/pcr/m/n/10 ldenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den
se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both
[2457]
Underfull \hbox (badness 6063) in paragraph at lines 7576--7579
[]\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call
y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2458pdfTeX warning (ext4): destination with the same identifier (name{Rfn.*,nd
iMatrix,Matrix.Rdash.method}) has been already used, duplicate ignored
<argument> ...shipout:D \box_use:N \l_shipout_box 
                                                  
l.7705 crossprod(nM) # pattern sparse
                                     ]
Underfull \hbox (badness 2635) in paragraph at lines 7736--7741
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/
10 "ldenseMatrix"[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 4229) in paragraph at lines 7736--7741
\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class 
[]\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri
x"[]\T1/ptm/m/n/10 , by class
Underfull \hbox (badness 10000) in paragraph at lines 7744--7747
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ); use, e.g.,
[2459]
Underfull \hbox (badness 10000) in paragraph at lines 7801--7811
[]\T1/pcr/m/n/10 lsTMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltTMatrix[]\T
1/ptm/m/n/10 ) or in com-pressed column-oriented form (class
Underfull \hbox (badness 1242) in paragraph at lines 7801--7811
[][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pc
r/m/n/10 lgCMatrix[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lsCMatrix[]\T1/ptm/m/n/10
 , and []\T1/pcr/m/n/10 ltCMatrix[]\T1/ptm/m/n/10 ) or--\T1/ptm/m/it/10 rarely\
T1/ptm/m/n/10 --in
[2460]
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[]\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal
ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2461]
Underfull \hbox (badness 10000) in paragraph at lines 7968--7971
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2462]
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[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2463] [2464] [2465]
Underfull \hbox (badness 10000) in paragraph at lines 8267--8270
[]\T1/ptm/m/n/10 vector of all non-zero en-tries of []\T1/pcr/m/n/10 x[]\T1/ptm
/m/n/10 ; ex-ists \T1/ptm/b/n/10 only \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 as(x
,
Underfull \hbox (badness 1490) in paragraph at lines 8289--8291
[]\T1/pcr/m/n/10 mat2triplet() []\T1/ptm/m/n/10 is con-cep-tu-ally the \T1/ptm/
m/it/10 in-verse \T1/ptm/m/n/10 func-tion of [][][]\T1/pcr/m/n/10 spMatrix[][][
] []\T1/ptm/m/n/10 and (one case of)
[2466]pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rp
cent.*.Rpcent.}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.8310 ...*\%}{matmult-methods}{.Rpcent.*.Rpcent.}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.crossprod}) has been already used, dup
licate ignored
<to be read again> 
                   \relax 
l.8384 ...A{crossprod}{matmult-methods}{crossprod}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.tcrossprod}) has been already used, du
plicate ignored
<to be read again> 
                   \relax 
l.8460 ...tcrossprod}{matmult-methods}{tcrossprod}
                                                  
Underfull \hbox (badness 1881) in paragraph at lines 8546--8552
\T1/ptm/m/n/10 ally im-ple-mented ef-fi-ciently with-out com-put-ing [][][]\T1/
pcr/m/n/10 t[][][](.)[]\T1/ptm/m/n/10 's un-nec-es-sar-ily. They also re-turn
[2467]
Underfull \hbox (badness 10000) in paragraph at lines 8615--8618
[]\T1/pcr/m/n/10 signature(x = "dgeMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
Underfull \hbox (badness 10000) in paragraph at lines 8618--8623
[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-tures (use
Underfull \hbox (badness 3557) in paragraph at lines 8618--8623
[]\T1/pcr/m/n/10 showMethods("%*%", class="dtrMatrix")[]\T1/ptm/m/n/10 ): ma-tr
ix mul-ti-pli-ca-tion. Mul-ti-
Underfull \hbox (badness 6608) in paragraph at lines 8623--8627
\T1/ptm/m/n/10 sig-na-tures, use []\T1/pcr/m/n/10 showMethods("crossprod", clas
s = "dgeMatrix")[]\T1/ptm/m/n/10 , ma-trix
Underfull \hbox (badness 1552) in paragraph at lines 8633--8634
[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-
[2468] [2469] [2470]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.det}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.8856 \aliasA{det}{Matrix-class}{det}
                                      
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[]\T1/pcr/m/n/10 signature(x = "Matrix", value = "list")[]\T1/ptm/m/n/10 : set 
the []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 to a
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Underfull \hbox (badness 10000) in paragraph at lines 8955--8957
[]\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This 
re-lies on a cor-rect
[2471] [2472] [2473]
Underfull \hbox (badness 10000) in paragraph at lines 9125--9129
[]\T1/pcr/m/n/10 CholeskyFactorization[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Bunch
KaufmanFactorization[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 signature(x = "MatrixFactorization", logarithm =
Underfull \hbox (badness 10000) in paragraph at lines 9165--9168
[]\T1/pcr/m/n/10 signature(obj = "MatrixFactorization")[]\T1/ptm/m/n/10 : re-tu
rns []\T1/pcr/m/n/10 obj []\T1/ptm/m/n/10 with
Underfull \hbox (badness 3019) in paragraph at lines 9174--9177
[]\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 CholeskyFactorization[]\T
1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 Cholesky[][][][]\T1/ptm/m/n/10 , [][
][]\T1/pcr/m/n/10 pCholesky[][][][]\T1/ptm/m/n/10 , and
[2474]
Underfull \hbox (badness 10000) in paragraph at lines 9178--9180
[]\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 BunchKaufmanFactorization
[]\T1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 BunchKaufman[][][] []\T1/ptm/m/n
/10 and
Underfull \hbox (badness 10000) in paragraph at lines 9193--9196
[]\T1/ptm/m/n/10 Generic func-tions [][][]\T1/pcr/m/n/10 expand1[][][] []\T1/pt
m/m/n/10 and [][][]\T1/pcr/m/n/10 expand2[][][] []\T1/ptm/m/n/10 for con-struct
-ing ma-trix fac-tors from
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[]\T1/pcr/m/n/10 ndenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den
se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both
Underfull \hbox (badness 6063) in paragraph at lines 9254--9257
[]\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call
y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2475]
Underfull \hbox (badness 3312) in paragraph at lines 9311--9313
[]\T1/ptm/m/n/10 logical in-di-cat-ing if []\T1/pcr/m/n/10 X <- (X + t(X))/2 []
\T1/ptm/m/n/10 should be done, af-ter []\T1/pcr/m/n/10 X <-
[2476] [2477]
Overfull \hbox (85.38034pt too wide) in paragraph at lines 9414--9414
 []   \T1/pcr/m/n/9 all.equal(n.A.m, unname(as.matrix(n.A$mat)), tolerance = 1e
-15)# seen rel.d.= 1.46e-16[] 
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 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a
ll in this example[] 
[2478]
Underfull \hbox (badness 2635) in paragraph at lines 9507--9512
[]\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 , di-rec
tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/
10 "ndenseMatrix"[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 4229) in paragraph at lines 9507--9512
\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class 
[]\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri
x"[]\T1/ptm/m/n/10 , by class
Underfull \hbox (badness 10000) in paragraph at lines 9515--9518
[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ); use, e.g.,
[2479]
Underfull \hbox (badness 2521) in paragraph at lines 9583--9589
[]\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N
ote that these co-er-cions
[2480]
Underfull \hbox (badness 1867) in paragraph at lines 9696--9698
[]\T1/ptm/m/n/10 fast sim-
[2481]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.nor
m}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9738 \aliasA{norm}{norm-methods}{norm}
                                         [2482]
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 []\T1/pcr/m/n/9 A <- sparseMatrix(i, j, x = x)                      ##  8 x 10
 "dgCMatrix"[] 
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 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10
 "dsCMatrix"[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9835--9835
 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10
 "dtCMatrix"[] 
Underfull \hbox (badness 2401) in paragraph at lines 9880--9890
[]\T1/ptm/m/n/10 These can be stored in the ``triplet'' form ([][][]\T1/pcr/m/n
/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pcr/m/n/10 ngTMatri
x[]\T1/ptm/m/n/10 ,
[2483]
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[]\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal
ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion
[2484]
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[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2485]
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[]\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n
/10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/
10 ; use, e.g.,
[2486]
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[]\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , 
though
[2487] [2488] [2489]
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[]\T1/pcr/m/n/10 signature(x = "pMatrix", y = "Matrix") []\T1/ptm/m/n/10 and ot
h-ers listed by
Underfull \hbox (badness 8189) in paragraph at lines 10383--10386
[]\T1/pcr/m/n/10 showMethods("%*%", classes = "pMatrix")[]\T1/ptm/m/n/10 : ma-t
rix prod-ucts im-ple-mented
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[]\T1/pcr/m/n/10 signature(from = "numeric", to = "pMatrix")[]\T1/ptm/m/n/10 : 
sup-port-ing typ-i-cal
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[]\T1/pcr/m/n/10 signature(a = "pMatrix", b = "missing")[]\T1/ptm/m/n/10 : the 
in-verse per-mu-ta-tion ma-trix,
[2490]
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 []               \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD
iag = TRUE,[] 
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 []\T1/pcr/m/n/10 printSpMatrix(x, digits = NULL, maxp = max(100L, getOption("m
ax.print")),[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 10469--10469
 []              \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln
ames = TRUE,[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 10473--10473
 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption("
max.print")),[] 
[2491]
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 []              \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln
ames = TRUE,[] 
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[]\T1/ptm/m/n/10 logical or string spec-i-fy-ing if and how col-umn names of []
\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 should
Underfull \hbox (badness 10000) in paragraph at lines 10499--10509
\T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro
m
[2492]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr}
) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10601 \aliasA{qr}{qr-methods}{qr}
                                    [2493] [2494]
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 []    \T1/pcr/m/n/9 all.equal(qr.coef(qr.A1, b), drop(solve(crossprod(A1), cro
ssprod(A1, b))))[] 
[2495]
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 []    \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 qr.coef\TS1/pcr/m/n/9 ' \
T1/pcr/m/n/9 computes unique least squares solution of "nearby" problem[] 
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 []    \T1/pcr/m/n/9 ## Z x = b for some full rank Z ~ A, currently without war
ning {FIXME} ![] 
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
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Underfull \hbox (badness 2005) in paragraph at lines 10845--10851
[]\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 
qr[][][](x, tol,
Underfull \hbox (badness 10000) in paragraph at lines 10862--10865
[]\T1/ptm/m/n/10 is for back com-pat-i-bil-ity; for dense []\T1/pcr/m/n/10 x[]\
T1/ptm/m/n/10 , it cor-re-sponds to
[2497] [2498]
Overfull \hbox (85.38034pt too wide) in paragraph at lines 10959--10959
 []\T1/pcr/m/n/9 ## The meaning of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 tol\TS1/pcr/m/
n/9 ' \T1/pcr/m/n/9 for method="qrLINPACK" and *dense* x is not entirely "scale
 free"[] 
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 []\T1/pcr/m/n/9 sapply(meths, function(.m.) rankMatrix(M15, method = .m., tol 
= 1e-7)) # all 14[] 
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 []\T1/pcr/m/n/9 (st1 <- system.time(r1 <- rankMatrix(L)))                # war
ning+ ~1.5 sec (2013)[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 10983--10983
 []\T1/pcr/m/n/9 (st2 <- system.time(r2 <- rankMatrix(L, method = "qr"))) # con
siderably faster![] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rcond}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11002 \aliasA{rcond}{rcond-methods}{rcond}
                                             [2499] [2500]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11118--11118
 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not
 have full rank[] 
[2501] [2502]
Underfull \hbox (badness 2150) in paragraph at lines 11284--11292
\T1/ptm/m/n/10 dices, if not []\T1/pcr/m/n/10 symmetric [][]sample.int[][][](nr
ow*ncol, nnz)[]\T1/ptm/m/n/10 , then---if []\T1/pcr/m/n/10 rand.x []\T1/ptm/m/n
/10 is not
[2503] [2504]
Underfull \hbox (badness 5147) in paragraph at lines 11441--11444
[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 SchurFactorization[][][][]\T1/ptm/m
/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1/pt
m/m/n/10 , by class
[2505]
Underfull \hbox (badness 3179) in paragraph at lines 11456--11459
[]\T1/pcr/m/n/10 signature(from = "Schur", logarithm = "logical")[]\T1/ptm/m/n/
10 : com-putes
[2506] [2507]
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 []    \T1/pcr/m/n/9 all.equal(e1, e3[order(Mod(e3), decreasing = TRUE)], toler
ance = 1e-13)[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solve}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11630 \aliasA{solve}{solve-methods}{solve}
                                             [2508]
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 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", "
D", "P", "Pt"), ...)[] 
Underfull \hbox (badness 1147) in paragraph at lines 11766--11772
[]\T1/ptm/m/n/10 a vec-tor, [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/
n/10 , ma-trix, or [][][]\T1/pcr/m/n/10 Matrix[][][] []\T1/ptm/m/n/10 sat-is-fy
-ing []\T1/pcr/m/n/10 NROW(b) ==
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[]\T1/ptm/m/n/10 Methods for dense []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are buil
t on 14 LA-PACK rou-tines: class []\T1/pcr/m/n/10 d..Matrix[]\T1/ptm/m/n/10 , w
here
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[]\T1/ptm/m/n/10 Methods for sparse []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are bui
lt on CXS-parse rou-tines []\T1/pcr/m/n/10 cs_lsolve[]\T1/ptm/m/n/10 , []\T1/pc
r/m/n/10 cs_usolve[]\T1/ptm/m/n/10 , and
[2509]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 11889--11889
 []\T1/pcr/m/n/9 image(ia0 <- solve(a, tol = 0)) # checker board, dense [but re
ally, a is singular!][] 
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 []  \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on
 [FIXME ??] only[] 
[2510]
Underfull \hbox (badness 10000) in paragraph at lines 11916--11919
[]\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu
la and data frame
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 []   \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs
parse)[] 
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 []   \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs
parse,[] 
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[]\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][
][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject,
Underfull \hbox (badness 10000) in paragraph at lines 11952--11955
[]\T1/ptm/m/n/10 character string or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or 
(co-er-ca-ble to)
Underfull \hbox (badness 2591) in paragraph at lines 11952--11955
[]\T1/pcr/m/n/10 "[][]sparseMatrix[][][]"[]\T1/ptm/m/n/10 , spec-i-fy-ing the c
on-trasts to be ap-plied to the
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[]\T1/ptm/m/n/10 should fac-tors have un-used lev-els dropped? The de-fault for
Underfull \hbox (badness 2828) in paragraph at lines 11963--11967
[]\T1/pcr/m/n/10 sparse.model.matrix []\T1/ptm/m/n/10 has been changed to []\T1
/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , 2010-07, for
[2511]
Underfull \hbox (badness 1668) in paragraph at lines 11978--11983
[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/
m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc
r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse
Underfull \hbox (badness 3291) in paragraph at lines 12005--12010
[]\T1/pcr/m/n/10 model.Matrix(sparse = TRUE) []\T1/ptm/m/n/10 from pack-age [][
]\T1/ptm/b/n/10 Ma-trix-Mod-els[][] \T1/ptm/m/n/10 may be nowa-days be
Underfull \hbox (badness 2073) in paragraph at lines 12005--12010
\T1/ptm/m/n/10 prefer-able to []\T1/pcr/m/n/10 sparse.model.matrix[]\T1/ptm/m/n
/10 , as []\T1/pcr/m/n/10 model.Matrix []\T1/ptm/m/n/10 re-turns an ob-ject of 
class
[2512]
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 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0, 0),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12059--12059
 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop=FALSE),"CsparseMatrix"), dim(M)
 == c(3, 0),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12060--12060
 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0,12),[] 
[2513]
Underfull \hbox (badness 2961) in paragraph at lines 12122--12125
[]\T1/pcr/m/n/10 signature(from = "sparseLU", logarithm = "logical")[]\T1/ptm/m
/n/10 : com-
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 []\T1/pcr/m/n/9 A <- as(readMM(system.file("external", "pores_1.mtx", package 
= "Matrix")),[] 
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 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
[2514]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12183--12183
 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(dn[1L
], list(NULL)),[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12186--12186
 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
Underfull \hbox (badness 10000) in paragraph at lines 12211--12213
[]\T1/ptm/m/n/10 This in-ter-face is rec-om-mended over di-rect con-struc-tion 
via calls such as
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 []             \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = 
TRUE,[] 
[2515]
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\T1/ptm/m/n/10 of the sparse ma-trix re-sult, i.e., spec-i-fy-ing one of the vi
r-tual classes
[2516]
Underfull \hbox (badness 10000) in paragraph at lines 12345--12348
[]\T1/ptm/m/n/10 The stan-dard \T1/phv/m/n/10 R [][][]\T1/pcr/m/n/10 xtabs[][][
](*, sparse=TRUE)[]\T1/ptm/m/n/10 , for sparse ta-bles and
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 []\T1/pcr/m/n/9 (A <- sparseMatrix(i, j, x = x))                    ##  8 x 10
 "dgCMatrix"[] 
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 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10
 "dsCMatrix"[] 
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 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10
 "dtCMatrix"[] 
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 []\T1/pcr/m/n/9 (AA <- sparseMatrix(c(1,3:8), c(2,9,6:10), x = 7 * (1:7), dims
 = c(10,20)))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12371--12371
 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar
e consistent[] 
[2517]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 12394--12394
 []\T1/pcr/m/n/9 ## pointer vectors can be used, and the (i,x) slots are sorted
 if necessary:[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 12395--12395
 []\T1/pcr/m/n/9 m <- sparseMatrix(i = c(3,1, 3:2, 2:1), p= c(0:2, 4,4,6), x = 
1:6, dimnames = dn)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12421--12421
 []\T1/pcr/m/n/9 ## pointers example in converting from other sparse matrix rep
resentations.[] 
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 []   \T1/pcr/m/n/9 nzchar(dfil <- system.file("extdata", "rua_32_ax.rua", pack
age = "SparseM"))) {[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12426--12426
 []  \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims =
 X@dimension)[] 
[2518]
Underfull \hbox (badness 6842) in paragraph at lines 12516--12519
[]\T1/pcr/m/n/10 (x = "sparseMatrix", logarithm=TRUE)[]\T1/ptm/m/n/10 : [][][]\
T1/pcr/m/n/10 determinant[][][]() []\T1/ptm/m/n/10 meth-ods
Underfull \hbox (badness 10000) in paragraph at lines 12551--12555
[][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/10 , and its ref-er-ences,
 such as [][][]\T1/pcr/m/n/10 xtabs[][][](*, sparse=TRUE)[]\T1/ptm/m/n/10 , or
[2519] [2520]
Underfull \hbox (badness 2961) in paragraph at lines 12735--12738
[]\T1/pcr/m/n/10 signature(from = "sparseQR", logarithm = "logical")[]\T1/ptm/m
/n/10 : com-
[2521]
Underfull \hbox (badness 3229) in paragraph at lines 12813--12817
[]\T1/ptm/m/n/10 The many aux-il-iary func-tions for QR fac-tor-iza-tions: [][]
[]\T1/pcr/m/n/10 qr.Q[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.R[][][][]
\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.X[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 qr.coef[][][][]\T1/ptm/m/n/10 ,
[2522]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12853--12853
 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m
atrix"), ...)[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12861--12861
 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(m, m), Dimnames = c(dn[1L
], list(NULL)),[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12864--12864
 []              \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list(
NULL), dn[2L]),[] 
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Overfull \hbox (42.18039pt too wide) in paragraph at lines 12883--12883
 []    \T1/pcr/m/n/9 ae2(qrc <- qr.coef  (qr.A, b), with(e.qr.A, solve(R1 %*% P
2., t(qrQ)) %*% b))[] 
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[]\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case
 a
[2524]
Underfull \hbox (badness 2970) in paragraph at lines 13039--13045
[]\T1/ptm/m/n/10 Sparse Vec-tor Classes: The vir-tual mother class []\T1/pcr/m/
n/10 "sparseVector" []\T1/ptm/m/n/10 has the five ac-
Underfull \hbox (badness 3679) in paragraph at lines 13039--13045
\T1/ptm/m/n/10 tual daugh-ter classes []\T1/pcr/m/n/10 "dsparseVector"[]\T1/ptm
/m/n/10 , []\T1/pcr/m/n/10 "isparseVector"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "
lsparseVector"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 13084--13087
[]\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/
n/10 co-erces sparse
[2525]
Underfull \hbox (badness 10000) in paragraph at lines 13118--13123
[]\T1/pcr/m/n/10 (x = "nsparseVector")[]\T1/ptm/m/n/10 : re-turn [][][]\T1/pcr/
m/n/10 logical[][][] []\T1/ptm/m/n/10 or
Underfull \hbox (badness 10000) in paragraph at lines 13136--13138
[][][]\T1/pcr/m/n/10 sparseVector[][][]() []\T1/ptm/m/n/10 for friendly con-str
uc-tion of sparse vec-tors (apart from []\T1/pcr/m/n/10 as(*,
[2526]
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Overfull \hbox (24.78088pt too wide) in paragraph at lines 13232--13232
 []\T1/pcr/m/n/10 spMatrix(nrow, ncol, i = integer(0L), j = integer(0L), x = do
uble(0L)) 
Underfull \hbox (badness 2310) in paragraph at lines 13259--13265
[][][]\T1/pcr/m/n/10 Matrix[][][](*, sparse=TRUE) []\T1/ptm/m/n/10 for the more
 usual con-struc-tor of such ma-tri-ces. Then,
[2528]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[<.
Rdash.}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.13311 ...\Rdash{}}{subassign-methods}{[<.Rdash.}
                                                  
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[]\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back
[2529]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.13445 \aliasA{[}{subscript-methods}{[}
                                         [2530]
Underfull \hbox (badness 2591) in paragraph at lines 13580--13585
\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 triangularMatrix[][][][]\T1/ptm/m/n
/10 , and, e.g., [][][]\T1/pcr/m/n/10 dsyMatrix[][][] []\T1/ptm/m/n/10 for nu-m
eric \T1/ptm/m/it/10 dense \T1/ptm/m/n/10 ma-tri-ces, or
[2531]
Underfull \hbox (badness 2057) in paragraph at lines 13656--13658
[]\T1/ptm/m/n/10 These are generic func-tions with sev-eral meth-ods for dif-fe
r-ent ma-trix classes, use e.g.,
Underfull \hbox (badness 6396) in paragraph at lines 13665--13669
[]\T1/pcr/m/n/10 symmpart(x) []\T1/ptm/m/n/10 re-turns a sym-met-ric ma-trix, i
n-her-it-ing from [][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 o
r
[2532]
Underfull \hbox (badness 7722) in paragraph at lines 13670--13675
[]\T1/pcr/m/n/10 skewpart(x) []\T1/ptm/m/n/10 re-turns a skew-symmetric ma-trix
, in-her-it-ing from [][][]\T1/pcr/m/n/10 generalMatrix[][][][]\T1/ptm/m/n/10 ,
[2533]
Underfull \hbox (badness 6641) in paragraph at lines 13747--13750
[]\T1/ptm/m/n/10 Currently, [][][]\T1/pcr/m/n/10 Schur[][][][]\T1/ptm/m/n/10 , 
[][][]\T1/pcr/m/n/10 isSymmetric[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 as
() []\T1/ptm/m/n/10 (i.e. [][][]\T1/pcr/m/n/10 coerce[][][][]\T1/ptm/m/n/10 ) h
ave meth-ods with
Underfull \hbox (badness 5133) in paragraph at lines 13783--13787
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 "TsparseMatrix" []\T1/ptm/m/n/10 class is
 the vir-tual class of all sparse ma-tri-ces coded in
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\T1/ptm/m/n/10 triplet form. Since it is a vir-tual class, no ob-jects may be c
re-ated from it. See
[2534] [2535]
Underfull \hbox (badness 1668) in paragraph at lines 13910--13913
[][][]\T1/pcr/m/n/10 pack[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 unpac
k[][][][]\T1/ptm/m/n/10 ; its vir-tual "com-ple-ment" []\T1/pcr/m/n/10 "[][]pac
kedMatrix[][][]"[]\T1/ptm/m/n/10 ; its proper sub-classes
[2536]
Underfull \hbox (badness 10000) in paragraph at lines 14021--14027
[]\T1/ptm/m/n/10 GAL lat-tice file `\T1/pcr/m/n/10 usc_q.GAL\T1/ptm/m/n/10 ' (r
e-trieved in 2008 from
[2537] [2538] [2539]) (./boot-pkg.tex [2540]
Chapter 18.
[2541] [2542] [2543] [2544] [2545] [2546] [2547]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 532--532
 []\T1/pcr/m/n/10 boot(data, statistic, R, sim = "ordinary", stype = c("i", "f"
, "w"), 
[2548]
Underfull \hbox (badness 1325) in paragraph at lines 570--577
[]\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sim-u-la-tion r
e-quired. Pos-si-ble
Underfull \hbox (badness 1275) in paragraph at lines 585--590
[]\T1/ptm/m/n/10 An in-te-ger vec-tor or fac-tor spec-i-fy-ing the strata for m
ulti-sample prob-
[2549] [2550] [2551]
Underfull \hbox (badness 1881) in paragraph at lines 826--828
[]\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi
-cient boot-strap sim-u-la-tion.
Underfull \hbox (badness 6493) in paragraph at lines 853--857
[][][]\T1/pcr/m/n/10 boot.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bo
ot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 censboot[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 empinf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 j
ack.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 tilt.boot[][][][]\T
1/ptm/m/n/10 ,
[2552]
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 []\T1/pcr/m/n/9 nuke.lm <- glm(log(cost) ~ date+log(cap)+ne+ct+log(cum.n)+pt, 
data = nuke)[] 
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[2554] [2555]
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[]\T1/ptm/m/n/10 If sup-plied, a value to be used as an es-ti-mate of the vari-
ance of the
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\T1/ptm/m/n/10 statis-tic for the nor-mal ap-prox-i-ma-tion and stu-den-tized i
n-ter-vals. If it
Underfull \hbox (badness 2343) in paragraph at lines 1084--1093
\T1/ptm/m/n/10 is not sup-plied and []\T1/pcr/m/n/10 length(index) []\T1/ptm/m/
n/10 is 2 then []\T1/pcr/m/n/10 var.t0 []\T1/ptm/m/n/10 de-faults to
Underfull \hbox (badness 2150) in paragraph at lines 1105--1111
[]\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est. The de-fa
ult value is
[2556] [2557] [2558] [2559]
Underfull \hbox (badness 1571) in paragraph at lines 1445--1447
[]\T1/ptm/m/n/10 Rawlings, J.O. (1988) \T1/ptm/m/it/10 Ap-plied Re-gres-sion An
al-y-sis\T1/ptm/m/n/10 . Wadsworth and Brooks/Cole Statis-
[2560] [2561] [2562] [2563] [2564]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1738--1738
 []\T1/pcr/m/n/10 censboot(data, statistic, R, F.surv, G.surv, strata = matrix(
1,n,2), 
[2565] [2566] [2567]
Underfull \vbox (badness 10000) has occurred while \output is active [2568]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 2013--2013
 []\T1/pcr/m/n/9 mel.cox <- coxph(Surv(time, status == 1) ~ ns(thickness, df=4)
 + strata(ulcer),[] 
[2569]
Underfull \hbox (badness 6268) in paragraph at lines 2084--2086
[]\T1/ptm/m/n/10 The length of time (in months) that the res-i-dent spent at Ch
an-ning House.
[2570] [2571] [2572]
Underfull \hbox (badness 1565) in paragraph at lines 2338--2343
[]\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est on the ori
g-i-nal data set
[2573]
Underfull \hbox (badness 4595) in paragraph at lines 2363--2368
\T1/ptm/m/n/10 are passed un-changed ev-ery time []\T1/pcr/m/n/10 boot.out$stat
istic []\T1/ptm/m/n/10 is called.
Underfull \hbox (badness 1881) in paragraph at lines 2432--2434
[]\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi
-cient boot-strap sim-u-la-tion.
Underfull \hbox (badness 2057) in paragraph at lines 2440--2441
[][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 empinf[]
[][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 k3.linear[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 linear.approx[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
saddle.distn[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.spline[][][][]
\T1/ptm/m/n/10 ,
[2574] [2575]
Underfull \hbox (badness 1077) in paragraph at lines 2536--2540
[]\T1/ptm/m/n/10 The un-bi-ased es-ti-ma-tor uses a mul-ti-plier of []\T1/pcr/m
/n/10 n/((n-1)*(n-2)) []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 n []\T1/ptm/m/n/1
0 is the sam-ple
Underfull \hbox (badness 1112) in paragraph at lines 2536--2540
\T1/ptm/m/n/10 size, if []\T1/pcr/m/n/10 unbiased []\T1/ptm/m/n/10 is []\T1/pcr
/m/n/10 FALSE []\T1/ptm/m/n/10 then a mul-ti-plier of []\T1/pcr/m/n/10 1/n []\T
1/ptm/m/n/10 is used. This is mul-ti-plied by
[2576] [2577] [2578] [2579] [2580]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2895--2895
 []\T1/pcr/m/n/10 EEF.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t 
= 25, 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2897--2897
 []\T1/pcr/m/n/10 EL.profile(y, tmin  =  min(y) + 0.1, tmax = max(y) - 0.1, n.t
  =  25,[] 
[2581] [2582] [2583]
Underfull \hbox (badness 3861) in paragraph at lines 3105--3108
[][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.arr
ay[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.ci[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 control[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 jack
.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 linear.approx[][][][]\
T1/ptm/m/n/10 ,
[2584]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 3158--3158
 []\T1/pcr/m/n/10 envelope(boot.out = NULL, mat = NULL, level = 0.95, index = 1
:ncol(mat)) 
[2585] [2586] [2587]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3378--3378
 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t
he resampling 
[2588] [2589] [2590] [2591] [2592] [2593] [2594]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838
 []             \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q
 = NULL)[] 
[2595] [2596]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977
 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 =
 grav.z0[3])[] 
[2597] [2598] [2599] [2600]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259
 []\T1/pcr/m/n/9 #  To draw the jackknife-after-bootstrap plot for the head siz
e data as in 
[2601] [2602]
Underfull \hbox (badness 10000) in paragraph at lines 4362--4364
[]\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o
f
Underfull \hbox (badness 1430) in paragraph at lines 4371--4375
\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the
r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a
re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to
[2603] [2604] [2605] [2606] [2607] [2608] [2609] [2610] [2611]
Underfull \hbox (badness 3000) in paragraph at lines 4959--4962
[]\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put 
of a call to
[2612] [2613] [2614] [2615]
Underfull \hbox (badness 2293) in paragraph at lines 5238--5241
[]\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the 
boot-strap
Underfull \hbox (badness 1668) in paragraph at lines 5238--5241
\T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl
os-est to
[2616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317
 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat
a = grav1[, 2])[] 
[2617] [2618] [2619] [2620] [2621] [2622] [2623] [2624]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866
 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c
ity.sp1$spa[1][] 
[2625]
Underfull \hbox (badness 1127) in paragraph at lines 5988--6006
[]\T1/ptm/m/n/10 etc. un-til a point is found with a cdf ap-prox-i-ma-tion less
 than []\T1/pcr/m/n/10 min(alpha)/10[]\T1/ptm/m/n/10 , then
[2626]
Underfull \hbox (badness 2837) in paragraph at lines 6021--6024
[]\T1/ptm/m/n/10 The re-turned value is an ob-ject of class []\T1/pcr/m/n/10 "s
addle.distn"[]\T1/ptm/m/n/10 . See the help file for
[2627] [2628] [2629] [2630]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6306--6306
 []\T1/pcr/m/n/9 # This example is taken from Exercise 7.5 of Gill, Murray and 
Wright (1991). 
[2631] [2632]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6495--6495
 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t
he resampling 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6497--6497
 []\T1/pcr/m/n/9 # value of the test statistic 1.84.  In the book exponential t
ilting was used[] 
[2633] [2634] [2635]
Underfull \hbox (badness 1596) in paragraph at lines 6742--6746
[]\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sec-ond ar-gu-m
ent ex-pected by
[2636] [2637]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6902--6902
 []                        \T1/pcr/m/n/9 stype = "i", sim = "balanced", alpha =
 c(0.05, 0.95),[] 
[2638] [2639] [2640] [2641] [2642] [2643] [2644] [2645]) (./class-pkg.tex
[2646]
Chapter 19.
[2647] [2648] [2649] [2650] [2651] [2652] [2653] [2654] [2655] [2656] [2657]
[2658] [2659] [2660]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1006--1006
 []    \T1/pcr/m/n/9 alpha = list(seq(0.05, 0, length.out = 1e4), seq(0.02, 0, 
length.out = 1e5)),[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1007--1007
 []    \T1/pcr/m/n/9 radii = list(seq(8, 1, length.out = 1e4), seq(4, 1, length
.out = 1e5)))[] 
[2661] [2662]) (./cluster-pkg.tex
Chapter 20.
[2663] [2664] [2665]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 253--253
 []  \T1/pcr/m/n/9 all.equal(a.wgt [iC], agnes(d.vr, method="flexible", par.met
hod = 0.5)[iC])   ,[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 254--254
 []  \T1/pcr/m/n/9 all.equal(a.sing[iC], agnes(d.vr, method="flex", par.method=
 c(.5,.5,0, -.5))[iC]),[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 255--255
 []  \T1/pcr/m/n/9 all.equal(a.comp[iC], agnes(d.vr, method="flex", par.method=
 c(.5,.5,0, +.5))[iC]))[] 
[2666] [2667]
Underfull \vbox (badness 10000) has occurred while \output is active [2668]
[2669]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 519--519
 []           \T1/pcr/m/n/10 col = c(2, 0), border = 0, axes = TRUE, frame.plot
 = axes,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 523--523
 []           \T1/pcr/m/n/10 yaxRight = fromLeft, y.mar = 2.4 + max.strlen/2.5,
 ...)[] 
[2670] [2671]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 638--638
 []      \T1/pcr/m/n/10 keep.data = medoids.x, rngR = FALSE, pamLike = FALSE, c
orrect.d = TRUE)[] 
[2672] [2673] [2674]
Underfull \hbox (badness 2941) in paragraph at lines 792--795
[][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en
ces; [][][]\T1/pcr/m/n/10 clara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 pam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\
T1/ptm/m/n/10 ,
[2675]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 835--835
 []\T1/pcr/m/n/9 ## those that are not always in same cluster (5 out of 3000 fo
r this seed):[] 
Underfull \hbox (badness 10000) in paragraph at lines 882--884
[]\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p
le, see
[2676]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 947--947
 []     \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code
=3), ...)[] 
[2677]
Underfull \hbox (badness 4872) in paragraph at lines 992--994
[]\T1/ptm/m/n/10 simply cor-re-sponds to the global max-i-mum, i.e., is
Underfull \hbox (badness 1342) in paragraph at lines 1006--1010
[]\T1/ptm/m/n/10 This, the de-fault, has been pro-posed by Mar-tin Maech-ler in
 2012,
[2678]
Underfull \hbox (badness 2503) in paragraph at lines 1092--1096
[]\T1/ptm/m/n/10 Per Broberg (2006). SAGx: Sta-tis-ti-cal Anal-y-sis of the Gen
eChip. R pack-age ver-
[2679]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1118--1118
 []        \T1/pcr/m/n/9 sapply(mets, function(M) maxSE(fk, sk, method = M, SE.
factor = SEf)))[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 1135--1135
 []\T1/pcr/m/n/9 ## You can manually set it before running this :    doExtras <
- TRUE  # or  FALSE[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2680]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1173--1173
 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap(<iid_rnorm_p=3>)  ==> k = 1  clust
er is optimal")[] 
Underfull \hbox (badness 4144) in paragraph at lines 1205--1209
[]\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1
/pcr/m/n/10 diss []\T1/ptm/m/n/10 nor a []\T1/pcr/m/n/10 data []\T1/ptm/m/n/10 
com-po-nent, e.g., for
[2681]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1281--1281
 []          \T1/pcr/m/n/10 col.clus = if(color) c(2, 4, 6, 3) else 5, cex = 1,
 cex.txt = cex,[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 1287--1287
 []             \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin
t variability."),[] 
[2682] [2683] [2684]
Underfull \hbox (badness 10000) in paragraph at lines 1474--1477
Underfull \hbox (badness 10000) in paragraph at lines 1488--1492
[][][]\T1/pcr/m/n/10 princomp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cmds
cale[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 daisy[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cov.mve[][][
][]\T1/ptm/m/n/10 ,
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1512--1512
 []\T1/pcr/m/n/9 clusplot(pamv, col.p = votes.clus, labels = 4)# color points a
nd label ellipses[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1522--1522
 []  \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i
dent. only points[] 
[2685]
Underfull \hbox (badness 5741) in paragraph at lines 1562--1565
[]\T1/pcr/m/n/10 coefHier() []\T1/ptm/m/n/10 di-rectly in-ter-faces to the un-d
er-ly-ing C code, and ``proves'' that \T1/ptm/m/it/10 only
[2686]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1631--1631
 []      \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa
rnType,[] 
[2687]
Underfull \hbox (badness 1552) in paragraph at lines 1680--1682
[]\T1/ptm/b/n/10 A\T1/ptm/m/n/10 symmetric bi-nary vari-able, aka []\T1/pcr/m/n
/10 "A" []\T1/ptm/m/n/10 in re-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , se
e
Underfull \hbox (badness 1629) in paragraph at lines 1694--1698
[]\T1/ptm/b/n/10 I\T1/ptm/m/n/10 nterval scaled -- the \T1/ptm/b/n/10 de-fault 
\T1/ptm/m/n/10 for all nu-meric
Underfull \hbox (badness 3746) in paragraph at lines 1694--1698
\T1/ptm/m/n/10 (incl []\T1/pcr/m/n/10 integer[]\T1/ptm/m/n/10 ) columns of []\T
1/pcr/m/n/10 x[]\T1/ptm/m/n/10 , aka []\T1/pcr/m/n/10 "I" []\T1/ptm/m/n/10 in r
e-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , see
[2688]
Underfull \hbox (badness 1540) in paragraph at lines 1769--1777
\T1/ptm/m/n/10 In other words, $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 is a weigh
ted mean of $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 with weights $\OML/cmm/m/it/1
0 w[]^^N[]$\T1/ptm/m/n/10 , where $\OML/cmm/m/it/10 w[]$[]\T1/pcr/m/n/10 =
[2689]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1856--1856
 []\T1/pcr/m/n/9 ## Example 2 in reference, extended  ---  different ways of "m
ixed" / "gower":[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1860--1860
 []\T1/pcr/m/n/9 summary(d0    <- daisy(flower))  # -> the first 3 {0,1} treate
d as *N*ominal[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 1861--1861
 []\T1/pcr/m/n/9 summary(dS123 <- daisy(flower,  type = list(symm = 1:3))) # fi
rst 3 treated as *S*ymmetric[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1862--1862
 []\T1/pcr/m/n/9 stopifnot(dS123 == d0) # i.e.,  *S*ymmetric <==> *N*ominal {fo
r 2-level factor}[] 
Overfull \hbox (106.98032pt too wide) in paragraph at lines 1866--1866
 []\T1/pcr/m/n/9 summary(dA123 <- daisy(flowerN)) # .. all 3 logicals treated *
A*symmetric binary (w/ warning)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1868--1868
 []\T1/pcr/m/n/9 summary(dA13 <- daisy(flower, type = list(asymm = c(1, 3), ord
ratio = 7)))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1876--1876
 []\T1/pcr/m/n/9 summary(dN <- daisy(Nflow)) # w/ warning: treated binary .. 1:
3 as interval[] 
Overfull \hbox (117.7803pt too wide) in paragraph at lines 1877--1877
 []\T1/pcr/m/n/9 ## Still, using Euclidean/Manhattan distance for {0-1} *is* id
entical to treating them as "N" :[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 1893--1893
 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st
and = FALSE, 
[2690] [2691] [2692] [2693] [2694]
Underfull \hbox (badness 10000) in paragraph at lines 2212--2215
Underfull \hbox (badness 3179) in paragraph at lines 2223--2229
[][][]\T1/pcr/m/n/10 predict.ellipsoid[][][] []\T1/ptm/m/n/10 which is also the
 [][][]\T1/pcr/m/n/10 predict[][][] []\T1/ptm/m/n/10 method for []\T1/pcr/m/n/1
0 ellipsoid []\T1/ptm/m/n/10 ob-jects.
[2695] [2696]
Underfull \hbox (badness 10000) in paragraph at lines 2380--2383
[][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en
ces; [][][]\T1/pcr/m/n/10 fanny.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 partition.object[][][][]\T1/ptm/m/n/10 ,
[2697]
Underfull \hbox (badness 1292) in paragraph at lines 2448--2451
[]\T1/ptm/m/n/10 named vec-tor with []\T1/pcr/m/n/10 iterations[]\T1/ptm/m/n/10
 , the num-ber of it-er-a-tions needed and
[2698]
Underfull \hbox (badness 6675) in paragraph at lines 2457--2459
[]\T1/ptm/m/n/10 list with sil-hou-ette in-for-ma-tion of the near-est crisp cl
us-ter-ing, see
Underfull \hbox (badness 10000) in paragraph at lines 2480--2483
[][][]\T1/pcr/m/n/10 fanny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.f
anny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dissimilarity.object[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 ,
[2699]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2555--2555
 []                           \T1/pcr/m/n/9 "4" = "red", "5" = "blue")[levels(f
lowerN$color)][] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 2556--2556
 []\T1/pcr/m/n/9 levels(flowerN$soil)  <- c("1" = "dry", "2" = "normal", "3" = 
"wet")[levels(flowerN$soil)][] 
[2700]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 2619--2619
 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES 
= FALSE, ...) 
[2701]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 2666--2666
 []  \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k
 <= k, table(cl.k) >= 2)[] 
[2702]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2771--2771
 []\T1/pcr/m/n/9 ## One place to see if/how error messages are *translated* (to
 \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 de\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 / \TS1/pcr/m/n/
9 '\T1/pcr/m/n/9 pl\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ):[] 
[2703]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 2850--2850
 []    \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5"
, "faster"),[] 
[2704] [2705] [2706]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3076--3076
 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro
und (1, 16):[] 
[2707] [2708]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3179--3179
 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co
l.axis = "red")[] 
[2709] [2710] [2711]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 3373--3373
 []           \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x
$ac, digits = 2)),[] 
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 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2712]
Underfull \hbox (badness 10000) in paragraph at lines 3441--3444
[]\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m
/n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <-
[2713]
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 []           \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc,
 digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3492--3492
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2714] [2715] [2716]
Underfull \hbox (badness 10000) in paragraph at lines 3677--3680
[]\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1
/pcr/m/n/10 diss []\T1/ptm/m/n/10 com-po-nent as for [][][]\T1/pcr/m/n/10 pam[]
[][](*,
Underfull \hbox (badness 1448) in paragraph at lines 3677--3680
\T1/pcr/m/n/10 keep.diss=FALSE)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dist []\T1/p
tm/m/n/10 must be the dis-sim-i-lar-ity if a clus-plot is
[2717]
Underfull \hbox (badness 10000) in paragraph at lines 3740--3745
[][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 clusplot.partition[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 clusplot.de
fault[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 ,
[2718]
Underfull \hbox (badness 1748) in paragraph at lines 3802--3807
\T1/ptm/m/n/10 dis-patches to [][][]\T1/pcr/m/n/10 plot.hclust[][][](..)[]\T1/p
tm/m/n/10 . If more flex-i-ble plots are needed, con-sider []\T1/pcr/m/n/10 xx 
<-
Underfull \hbox (badness 6268) in paragraph at lines 3814--3817
[][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 agnes.o
bject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana[][][][]\T1/ptm/m/n/10 
, [][][]\T1/pcr/m/n/10 diana.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/1
0 hclust[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10
 , [][][]\T1/pcr/m/n/10 plot.agnes[][][][]\T1/ptm/m/n/10 ,
[2719]
Underfull \hbox (badness 10000) in paragraph at lines 3875--3877
[]\T1/ptm/m/n/10 Available as `\T1/pcr/m/n/10 pluton.dat\T1/ptm/m/n/10 ' from t
he archive of the Uni-ver-sity of Antwer-pen,
[2720] [2721]
Underfull \hbox (badness 10000) in paragraph at lines 3994--3997
[][][]\T1/pcr/m/n/10 summary.agnes[][][] []\T1/ptm/m/n/10 pro-duc-ing more out-
put; [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ag
nes.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/
n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 4025--4028
[][][]\T1/pcr/m/n/10 summary.clara[][][] []\T1/ptm/m/n/10 pro-duc-ing more out-
put; [][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cl
ara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/
n/10 ,
[2722]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 4078--4078
 []      \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right =
 TRUE, ...)[] 
Underfull \hbox (badness 2035) in paragraph at lines 4089--4091
[]\T1/ptm/m/n/10 a []\T1/pcr/m/n/10 dissimilarity []\T1/ptm/m/n/10 ob-ject or a
 []\T1/pcr/m/n/10 summary.dissimilarity []\T1/ptm/m/n/10 one for
[2723] [2724] [2725] [2726]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 4282--4282
 []     \T1/pcr/m/n/10 main = NULL, sub = NULL, xlab = expression("Silhouette w
idth "* s[i]),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 4284--4284
 []     \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat
 = TRUE, ...)[] 
[2727] [2728]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 4426--4426
 []\T1/pcr/m/n/9 plot(si, col = c("red", "green", "blue", "purple"))# with clus
ter-wise coloring[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4435--4435
 []   \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k),
 do.n.k=FALSE)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4437--4437
 []      \T1/pcr/m/n/9 outer = TRUE, font = par("font.main"), cex = par("cex.ma
in")); frame()[] 
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 []\T1/pcr/m/n/9 c6 <- c("tomato", "forest green", "dark blue", "purple2", "gol
denrod4", "gray20")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 4442--4442
 []   \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k),
 do.n.k=FALSE,[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 4449--4449
 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro
wnames == indices[] 
[2729] [2730] [2731] [2732] [2733] [2734] [2735]
Underfull \hbox (badness 10000) in paragraph at lines 4820--4826
[]\T1/ptm/m/n/10 Our ver-sion of the []\T1/pcr/m/n/10 xclara []\T1/ptm/m/n/10 i
s slightly more rounded than the one from
Underfull \hbox (badness 10000) in paragraph at lines 4836--4838
[]\T1/ptm/m/n/10 Sample data set ac-com-pa-ny-ing the ref-er-ence be-low (file 
`\T1/pcr/m/n/10 xclara.dat\T1/ptm/m/n/10 ' in side
Overfull \hbox (52.98038pt too wide) in paragraph at lines 4849--4849
 []\T1/pcr/m/n/9 ## Visualization: Assuming groups are defined as {1:1000}, {10
01:2000}, {2001:3000} 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 4851--4851
 []\T1/pcr/m/n/9 p.ID <- c(78, 1411, 2535) ## PAM\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 
s medoid indices  == pam(xclara, 3)$id.med[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4861--4861
 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7  clear "outlier"s  or "wrong group" o
bservations:[] 
[2736]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4865--4865
 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? -
- Robust range:[] 
[2737]) (./codetools-pkg.tex [2738]
Chapter 21.
Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16
 []           \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch
 = FALSE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17
 []           \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = 
!all,[] 
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 []           \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress
Undefined,[] 
[2739]
Underfull \hbox (badness 10000) in paragraph at lines 65--70
[]\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage
Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply
[2740]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 118--118
 []\T1/pcr/m/n/10 makeConstantFolder(..., leaf, handler, call, exit, isLocal, f
oldable,[] 
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 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e
nterInternal,[] 
[2741] [2742] [2743]) (./foreign-pkg.tex [2744]
Chapter 22.
Underfull \hbox (badness 10000) in paragraph at lines 33--37
[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
Underfull \hbox (badness 10000) in paragraph at lines 33--37
\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\T1/p
cr/m/n/10 https : / / support .
Underfull \hbox (badness 10000) in paragraph at lines 33--37
\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
Overfull \hbox (74.28088pt too wide) in paragraph at lines 33--37
\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2745]
Underfull \hbox (badness 1231) in paragraph at lines 67--70
[]\T1/ptm/m/n/10 a char-ac-ter string with the name of the ARFF file to read fr
om, or a
[2746] [2747]
Underfull \hbox (badness 3601) in paragraph at lines 234--242
[]\T1/ptm/m/n/10 A data frame with at-tributes. These will in-clude []\T1/pcr/m
/n/10 "datalabel"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "time.stamp"[]\T1/ptm/m/n/
10 ,
[2748]
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 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates =
 FALSE, 
[2749] [2750] [2751]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 458--458
 []          \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t
o.data.frame,[] 
[2752]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 459--459
 []          \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen
d", "no"),[] 
Underfull \hbox (badness 2846) in paragraph at lines 502--511
[]\T1/ptm/m/n/10 character: what to do with du-pli-cated value la-bels for dif-
fer-ent lev-
Underfull \hbox (badness 3746) in paragraph at lines 502--511
\T1/ptm/m/n/10 els. For []\T1/pcr/m/n/10 "append" []\T1/ptm/m/n/10 (the de-faul
t), the first orig-i-nal value la-bel is
Underfull \hbox (badness 2269) in paragraph at lines 502--511
\T1/ptm/m/n/10 kept while fur-ther du-pli-cated la-bels are re-named to []\T1/p
cr/m/n/10 paste0(label,
Underfull \hbox (badness 10000) in paragraph at lines 512--515
[]\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with
 du-
Underfull \hbox (badness 10000) in paragraph at lines 512--515
\T1/ptm/m/n/10 pli-cated value la-bels in SPSS (de-fault []\T1/pcr/m/n/10 "_dup
licated_"[]\T1/ptm/m/n/10 ) if
[2753]
Underfull \hbox (badness 10000) in paragraph at lines 546--554
[]\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / 
en-[]us / windows / win32 / intl /
Underfull \hbox (badness 7613) in paragraph at lines 564--570
[]\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute
[2754]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 619--619
 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg
ument settings.[] 
Overfull \hbox (112.38031pt too wide) in paragraph at lines 620--620
 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to 
R factor labels) are uncomplete,[] 
[2755]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 653--653
 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ
ate variables[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 657--657
 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt
h=w), "\n"))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 664--664
 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, 
collapse="")[] 
[2756] [2757]
Underfull \hbox (badness 10000) in paragraph at lines 808--809
Overfull \hbox (4.38043pt too wide) in paragraph at lines 818--818
 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f
oreign")[1])[] 
[2758]
Underfull \hbox (badness 10000) in paragraph at lines 865--869
[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
Underfull \hbox (badness 10000) in paragraph at lines 865--869
\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p
cr/m/n/10 https : / / support .
Underfull \hbox (badness 10000) in paragraph at lines 865--869
\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
Overfull \hbox (74.28088pt too wide) in paragraph at lines 865--869
\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2759]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 896--896
 []  \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G
lobalEnv) 
[2760]
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 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute
(x))) 
[2761] [2762]
Underfull \hbox (badness 10000) in paragraph at lines 1072--1073
[][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase 
/ format / data _ types .
Overfull \hbox (24.78088pt too wide) in paragraph at lines 1108--1108
 []          \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", 
"codes"))[] 
[2763] [2764]
Underfull \hbox (badness 10000) in paragraph at lines 1265--1271
[]\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig
n:::writeForeignStata[]\T1/ptm/m/n/10 ,
[2765]
Underfull \hbox (badness 2088) in paragraph at lines 1291--1294
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid
e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET
[2766]) (./lattice-pkg.tex
Chapter 23.
[2767]
Underfull \hbox (badness 2073) in paragraph at lines 114--118
\T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [
][]$\T1/pcr/m/n/10 http : / / web . archive . org /
Underfull \hbox (badness 10000) in paragraph at lines 114--118
\T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / 
ms / departments / sia /
[2768] [2769]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 288--288
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 292--292
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.xyplot"),[] 
[2770]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 303--303
 []        \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul
t.dotplot"),[] 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 313--313
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.barchart"),[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 324--324
 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.stripplot"),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 348--348
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2771]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 352--352
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.bwplot"),[] 
[2772] [2773] [2774]
Underfull \hbox (badness 1221) in paragraph at lines 655--658
[]\T1/ptm/m/n/10 A log-i-cal, or a list con-tain-ing com-po-nents to be used as
 ar-gu-ments to
[2775] [2776] [2777] [2778]
Underfull \hbox (badness 2005) in paragraph at lines 988--1000
[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the un-used lev-els of 
fac-tors will be
Underfull \hbox (badness 1199) in paragraph at lines 988--1000
\T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a 
use-ful lay-out.
[2779] [2780]
Underfull \hbox (badness 1661) in paragraph at lines 1101--1107
[]\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 sho
uld be num-bers be-tween 0 and 1, giv-ing co-or-di-nates
[2781]
Underfull \hbox (badness 1097) in paragraph at lines 1227--1229
[]\T1/ptm/m/n/10 Logical flag, whether leg-end should have a
Underfull \hbox (badness 1917) in paragraph at lines 1241--1242
[]\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to
[2782] [2783] [2784]
Underfull \hbox (badness 1540) in paragraph at lines 1476--1482
[]\T1/ptm/m/n/10 A list con-tain-ing pos-si-ble ar-gu-ments to [][][]\T1/pcr/m/
n/10 plot.trellis[][][][]\T1/ptm/m/n/10 ,
[2785]
Underfull \hbox (badness 10000) in paragraph at lines 1563--1580
[][][]\T1/pcr/m/n/10 panel.dotplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 panel.stripplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.superpose[]
[][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.loess[][][][]\T1/ptm/m/n/10 ,
[2786]
Underfull \vbox (badness 10000) has occurred while \output is active [2787]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 1651--1651
 []                  \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar
dSprays$rowpos))),[] 
[2788]
Underfull \hbox (badness 2012) in paragraph at lines 1705--1707
[]\T1/ptm/m/n/10 additional ar-gu-ments passed to [][][]\T1/pcr/m/n/10 xyplot[]
[][][]\T1/ptm/m/n/10 , which may pass them on to
Underfull \hbox (badness 6808) in paragraph at lines 1735--1739
[]\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p
assed to
Underfull \hbox (badness 10000) in paragraph at lines 1752--1755
[]\T1/ptm/m/n/10 style set-tings be-yond the stan-dard []\T1/pcr/m/n/10 col[]\T
1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1
/ptm/m/n/10 , etc; see
[2789]
Underfull \hbox (badness 10000) in paragraph at lines 1804--1806
[]\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix
 An-drews
[2790] [2791] [2792]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2045--2045
 []            \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto
.key,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2058--2058
 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl
ot"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2793]
Underfull \hbox (badness 10000) in paragraph at lines 2137--2140
[]\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 breaks []\T1/ptm/m/n/10 is un-spec-i-fie
d, the value of
Underfull \hbox (badness 1320) in paragraph at lines 2137--2140
[]\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs
t checked. If
[2794] [2795] [2796]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 2342--2342
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 2346--2346
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.qqmath"),[] 
[2797] [2798] [2799] [2800] [2801]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 2702--2702
 []          \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev
elplot.raster")[] 
[2802]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2734--2734
 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl
ot"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2803]
Underfull \hbox (badness 2913) in paragraph at lines 2813--2818
[]\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/
pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix.
Underfull \hbox (badness 3058) in paragraph at lines 2813--2818
[]\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values
 []\T1/ptm/m/n/10 must have the same lengths as
[2804] [2805]
Underfull \hbox (badness 6758) in paragraph at lines 2941--2945
[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the col-orkey should be
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\T1/ptm/m/n/10 ren-dered as a raster im-age us-ing [][][]\T1/pcr/m/n/10 grid.ra
ster[][][][]\T1/ptm/m/n/10 . See also
Underfull \hbox (badness 10000) in paragraph at lines 2947--2949
[]\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] 
[]\T1/ptm/m/n/10 when
Underfull \hbox (badness 7256) in paragraph at lines 2984--2984
[]\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gr
oups[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1609) in paragraph at lines 2997--3003
[]\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether raster rep-re-sen-ta-ti
ons should be used,
Underfull \hbox (badness 2772) in paragraph at lines 2997--3003
\T1/ptm/m/n/10 both for the false color im-age and the color key (if present). 
Ef-
Underfull \hbox (badness 1400) in paragraph at lines 2997--3003
\T1/ptm/m/n/10 fec-tively, set-ting this to []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n
/10 changes the de-fault panel func-tion from
Underfull \hbox (badness 2486) in paragraph at lines 3021--3025
[]\T1/ptm/m/n/10 Other use-ful ar-gu-ments are men-tioned in the help page for 
the de-fault panel func-tion
[2806] [2807]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3126--3126
 []      \T1/pcr/m/n/10 xlim = if (is.factor(x)) levels(x) else range(x, finite
 = TRUE),[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3127--3127
 []      \T1/pcr/m/n/10 ylim = if (is.factor(y)) levels(y) else range(y, finite
 = TRUE),[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3128--3128
 []      \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite
 = TRUE),[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3139--3139
 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
cloud"),[] 
[2808]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 3154--3154
 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.wireframe"),[] 
[2809]
Underfull \hbox (badness 2913) in paragraph at lines 3219--3224
[]\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/
pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix.
Underfull \hbox (badness 3058) in paragraph at lines 3219--3224
[]\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values
 []\T1/ptm/m/n/10 must have the same lengths as
Underfull \hbox (badness 2418) in paragraph at lines 3225--3225
[]\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p
tm/m/n/10 , []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepan
el[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 
groups[]\T1/ptm/m/n/10 ,
[2810] [2811] [2812]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.parallel}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.3506 \aliasA{parallel}{B\_08\_splom}{parallel}
                                                 [2813]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3548--3548
 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
splom"),[] 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 3571--3571
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.parallel"),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2814]
[2815] [2816] [2817] [2818]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3906--3906
 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt(
var(x))) 
[2819] [2820]
Underfull \hbox (badness 2277) in paragraph at lines 3992--3996
[]\T1/ptm/m/n/10 A pos-si-ble use of this ar-gu-ment is to change the de-fault 
set-tings by
Underfull \hbox (badness 2435) in paragraph at lines 3992--3996
\T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa
ded) set to
[2821]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 4089--4089
 []               \T1/pcr/m/n/10 symbol = palette.colors(palette = "Okabe-Ito")
[c(6, 2, 4, 7, 3, 5, 8)],[] 
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 []               \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re
v = TRUE),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 4098--4098
 []             \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = "
black",[] 
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 []             \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra
y70", 7),[] 
[2822] [2823]
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 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict 
= FALSE) 
Underfull \hbox (badness 1173) in paragraph at lines 4251--4255
[]\T1/ptm/m/n/10 A char-ac-ter string giv-ing the name of a com-po-nent. If un-
spec-i-fied in
[2824]
Underfull \hbox (badness 3219) in paragraph at lines 4278--4280
[]\T1/ptm/m/n/10 A log-i-cal flag, in-di-cat-ing whether a warn-ing should be i
s-sued when
Underfull \hbox (badness 1728) in paragraph at lines 4295--4299
[]\T1/pcr/m/n/10 theme[]\T1/ptm/m/n/10 ). These are used to mod-ify the cur-ren
t set-tings (ob-tained by
[2825]
Underfull \hbox (badness 5161) in paragraph at lines 4360--4364
[]\T1/ptm/m/n/10 The ac-tual list of the com-po-nents in []\T1/pcr/m/n/10 trell
is.settings []\T1/ptm/m/n/10 has not been fi-nal-ized,
Underfull \hbox (badness 4913) in paragraph at lines 4360--4364
\T1/ptm/m/n/10 so I'm not at-tempt-ing to list them here. The cur-rent value ca
n be ob-tained by
[2826]
Underfull \hbox (badness 1067) in paragraph at lines 4478--4488
[]\T1/ptm/m/n/10 A color spec-i-fi-ca-tion. []\T1/pcr/m/n/10 col []\T1/ptm/m/n/
10 is used for com-po-nents []\T1/pcr/m/n/10 "plot.symbol"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 4478--4488
[]\T1/pcr/m/n/10 "plot.line"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "plot.polygon"[
]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1735) in paragraph at lines 4478--4488
[]\T1/pcr/m/n/10 "superpose.line"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "super
pose.polygon"[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 col.points
Underfull \hbox (badness 10000) in paragraph at lines 4478--4488
[]\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , but is used 
only for []\T1/pcr/m/n/10 "plot.symbol" []\T1/ptm/m/n/10 and
Underfull \hbox (badness 5231) in paragraph at lines 4478--4488
[]\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 . Sim-i-larly, []\T1/pcr/m/
n/10 col.line []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col []\T1/ptm/m/n/10
 for
[2827]
Underfull \hbox (badness 1701) in paragraph at lines 4503--4506
[]\T1/ptm/m/n/10 fill color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 pl
ot.symbol[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 plot.polygon[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 4506--4508
[]\T1/ptm/m/n/10 border color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 
plot.polygon []\T1/ptm/m/n/10 and
[2828]
Underfull \hbox (badness 2932) in paragraph at lines 4649--4654
[]\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 aspect[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 between[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 grid[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 skip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/
ptm/m/n/10 , []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 ,
[2829] [2830] [2831] [2832]
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 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab
 = "Height")[] 
[2833] [2834]
Underfull \hbox (badness 1558) in paragraph at lines 5048--5048
[]\T1/pcr/m/n/10 main[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 page[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 par.strip.text[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 skip
[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1270) in paragraph at lines 5048--5048
[]\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yscale.co
mponents[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 axis[]\T1/ptm/m/n/10 , []\T1/pcr/m/
n/10 par.settings[]\T1/ptm/m/n/10 ,
Underfull \vbox (badness 1092) has occurred while \output is active [2835]
Underfull \hbox (badness 10000) in paragraph at lines 5105--5108
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 trellis[]\T1/ptm/m/n/10 ,
 by de-fault plot-ted by []\T1/pcr/m/n/10 print.trellis[]\T1/ptm/m/n/10 .
[2836] [2837]
Underfull \hbox (badness 1442) in paragraph at lines 5232--5235
[]\T1/pcr/m/n/10 plot.shingle []\T1/ptm/m/n/10 dis-plays the ranges of shin-gle
s via rect-an-gles. []\T1/pcr/m/n/10 print.shingle []\T1/ptm/m/n/10 and
[2838] [2839] [2840] [2841] [2842]
Underfull \hbox (badness 3646) in paragraph at lines 5571--5574
[][][]\T1/pcr/m/n/10 Lattice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 draw.
key[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 trellis.par.get[][][][]\T1/ptm
/m/n/10 , and [][][]\T1/pcr/m/n/10 xyplot[][][][]\T1/ptm/m/n/10 , specif-i-call
y the en-try for
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 []              \T1/pcr/m/n/10 bg = trellis.par.get("strip.background")$col[wh
ich.given],[] 
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 []              \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which
.given],[] 
[2843]
Underfull \hbox (badness 10000) in paragraph at lines 5684--5687
[]\T1/ptm/m/n/10 logical, spec-i-fy-ing whether the la-bels etc should be hor-i
-zon-tal.
Underfull \hbox (badness 2103) in paragraph at lines 5684--5687
[]\T1/pcr/m/n/10 horizontal=FALSE []\T1/ptm/m/n/10 is use-ful for strips on the
 left of pan-els us-ing
[2844]
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[]\T1/pcr/m/n/10 strip.default []\T1/ptm/m/n/10 is called for its side-effect, 
which is to draw a strip ap-pro-pri-ate for
[2845] [2846]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5861--5861
 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la
bels,[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 5875--5875
 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose
"), ...)[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 5876--5876
 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos
e"), ...)[] 
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 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location"
, "toplevel",[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 5882--5882
 []                        \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig
ht", "page"),[] 
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 []               \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in
side"),[] 
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 []                 \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi
ch.given",[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5891--5891
 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 5892--5892
 []                 \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi
ch.panel",[] 
[2847]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5893--5893
 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
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 []                 \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co
lumn",[] 
Underfull \hbox (badness 10000) in paragraph at lines 5910--5912
[]\T1/ptm/m/n/10 variables defin-ing the con-tents of the panel. In the case of
Underfull \hbox (badness 2376) in paragraph at lines 5921--5923
[]\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point.
 De-faults to
[2848]
Underfull \hbox (badness 2538) in paragraph at lines 6045--6049
\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 trellis.focus[]\T1/ptm/m/n/10 , the de-faul
t is []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 in in-ter-ac-tive mode, and
Underfull \hbox (badness 4205) in paragraph at lines 6056--6063
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 panel.identify.qqmath[]\T1/ptm/m/n/10 , e
x-tra pa-ram-e-ters are passed on to
Underfull \hbox (badness 4792) in paragraph at lines 6056--6063
[]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 trellis.switchFocus[]\T1/ptm/m/n/10 , the
se are used (in com-bi-na-tion with
[2849] [2850]
Underfull \hbox (badness 10000) in paragraph at lines 6209--6213
[][][]\T1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Latt
ice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.trellis[][][][]\T1/ptm/m
/n/10 , [][][]\T1/pcr/m/n/10 trellis.currentLayout[][][][]\T1/ptm/m/n/10 ,
[2851]
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[2853]
Underfull \hbox (badness 4242) in paragraph at lines 6356--6361
[]\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li
s pa-ram-e-
[2854] [2855]
Underfull \hbox (badness 3601) in paragraph at lines 6472--6477
[]\T1/ptm/m/n/10 Creates Box and Whisker plot of []\T1/pcr/m/n/10 x []\T1/ptm/m
/n/10 for ev-ery level of []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 (or the other way
 round
Underfull \hbox (badness 2486) in paragraph at lines 6472--6477
\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 horizontal=FALSE[]\T1/ptm/m/n/10 ). By de-fa
ult, the ac-tual box-plot statis-tics are cal-cu-lated us-ing
[2856]
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 []             \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co
lors")$palette,[] 
[2857] [2858] [2859]
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[]\T1/ptm/m/n/10 All three num-bers should be be-tween 0 and 1. The
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[]\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i
n
[2860]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6858--6858
 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Inferno"),[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 6861--6861
 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Dark Mint"),[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6864--6864
 []          \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1
0, "Harmonic"),[] 
[2861] [2862] [2863] [2864] [2865]
Underfull \hbox (badness 1320) in paragraph at lines 7225--7232
[]\T1/pcr/m/n/10 panel.levelplot.raster []\T1/ptm/m/n/10 is an al-ter-na-tive p
anel func-tion that uses the raster draw-
Underfull \hbox (badness 1715) in paragraph at lines 7225--7232
\T1/ptm/m/n/10 can only ren-der data on an eq-ui-s-paced grid), but can be more
 ef-fi-cient. When us-ing
[2866] [2867]
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 []                 \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = 
NULL,[] 
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[]\T1/ptm/m/n/10 The panel func-tion used for the di-ag-o-nals. See ar-gu-ments
 to
Underfull \hbox (badness 1584) in paragraph at lines 7330--7334
[]\T1/pcr/m/n/10 diag.panel.splom []\T1/ptm/m/n/10 to know what ar-gu-ments thi
s func-tion is passed
[2868] [2869]
Underfull \hbox (badness 10000) in paragraph at lines 7435--7438
\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 diag.panel []\T1/ptm/m/n/10 from []\T1/pcr/
m/n/10 panel.pairs[]\T1/ptm/m/n/10 . Cur-rently ig-nored by
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 []              \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow(
11, start=.12, end=.5)[i+j-1])[] 
[2870] [2871]
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[]\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu
-ally passed on to
[2872]
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 []                  \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta
ils.n = 50))[] 
[2873] [2874]
Underfull \hbox (badness 1939) in paragraph at lines 7836--7844
[]\T1/pcr/m/n/10 "lm" []\T1/ptm/m/n/10 adds a lin-ear re-gres-sion line (same a
s [][][]\T1/pcr/m/n/10 panel.lmline[][][][]\T1/ptm/m/n/10 , ex-cept
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\T1/ptm/m/n/10 for de-fault graph-i-cal pa-ram-e-ters). []\T1/pcr/m/n/10 "loess
" []\T1/ptm/m/n/10 adds a loess fit (same as
[2875]
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[]\T1/ptm/m/n/10 Most gen-er-ally, []\T1/pcr/m/n/10 grid []\T1/ptm/m/n/10 can b
e a list of ar-gu-ments to be sup-plied to
[2876]
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 []       \T1/pcr/m/n/9 ylab = list(c("horizontal=TRUE", "horizontal=FALSE"), y
 = c(1/6, 4/6)),[] 
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 []       \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d
raw = FALSE),[] 
[2877]
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 []        \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam
e.type)[] 
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 []        \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ide
ntifier, name.type)[] 
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[]\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 alpha[]\T1/ptm/m/n/10 ,
 []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1/ptm/m/n/10 , 
[]\T1/pcr/m/n/10 fill[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 , 
[]\T1/pcr/m/n/10 cex[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lineheight[]\T1/ptm/m/n
/10 , []\T1/pcr/m/n/10 font[]\T1/ptm/m/n/10 ,
[2879]
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 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.rect, col = 4, alpha = 0.5, wid
th = 0.1, height = 0.1)[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.polygon, col = 4, alpha = 0.5, 
rule = "evenodd")[] 
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 []\T1/pcr/m/n/9 ## Example adapted from https://journal.r-project.org/articles
/RJ-2012-017/[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polygon,  rule = "none",
 col = "grey")[] 
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "windin
g", col = "grey")[] 
[2880]
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 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "evenod
d", col = "grey")[] 
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 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden
tifier = "grid")[] 
[2881]
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[]\T1/ptm/m/n/10 A log-i-cal flag de-ter-min-ing whether the de-fault graph-i-c
al pa-ram-e-ters for
[2882] [2883]
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 []           \T1/pcr/m/n/9 panel.superpose(x, y, ..., panel.groups = panel.ave
rage, grid = FALSE,[] 
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 []                                \T1/pcr/m/n/9 args = list(mean = mean(x), sd
 = sd(x)), ...)[] 
[2884] [2885] [2886] [2887] [2888] [2889]
Underfull \hbox (badness 10000) in paragraph at lines 8878--8881
[]\T1/ptm/m/n/10 Extra ar-gu-ments. Passed down to []\T1/pcr/m/n/10 panel.super
pose
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[]\T1/ptm/m/n/10 from []\T1/pcr/m/n/10 panel.superpose.2[]\T1/ptm/m/n/10 , and 
to []\T1/pcr/m/n/10 panel.groups []\T1/ptm/m/n/10 from
[2890] [2891]
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 []\T1/pcr/m/n/10 prepanel.default.bwplot(x, y, horizontal, nlevels, origin, st
ack, ...)[] 
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 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin
t, ...)[] 
[2892]
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 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr
ipts, ...)[] 
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[]\T1/ptm/m/n/10 details of his-togram cal-cu-la-tions. []\T1/pcr/m/n/10 type [
]\T1/ptm/m/n/10 has a dif-fer-ent mean-ing in
[2893]
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[]\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti
es. If used with
[2894] [2895]
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[]\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr
ibed in
[2896]
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 []                \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b
ottom$labels$labels)[] 
[2897] [2898]
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 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su
nspot.year)),[] 
[2899]
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\T1/pcr/m/n/10 condition []\T1/ptm/m/n/10 for 2-D, and []\T1/pcr/m/n/10 left, r
ight.x, right.y, left.name, right.x.name,
[2900] [2901] [2902] [2903] [2904] [2905] [2906]
Underfull \hbox (badness 7238) in paragraph at lines 10018--10022
[]\T1/ptm/m/n/10 Factor with lev-els []\T1/pcr/m/n/10 "Svansota"[]\T1/ptm/m/n/1
0 , []\T1/pcr/m/n/10 "No. 462"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Manchuria"[]
\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 475"[]\T1/ptm/m/n/10 ,
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[]\T1/pcr/m/n/10 "Velvet"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Peatland"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "Glabron"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 4
57"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Wisconsin No. 38"[]\T1/ptm/m/n/10 ,
[2907] [2908] [2909]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.melanoma}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10249 \aliasA{melanoma}{H\_melanoma}{melanoma}
                                                 [2910] [2911] [2912]
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\T1/pcr/m/n/10 diseases[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Diabetes[]\T1/ptm/m/
n/10 , []\T1/pcr/m/n/10 Flu and pneumonia[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 He
art disease[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Lower
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 []        \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list(
columns = 2),[] 
[2913] [2914]) (./mgcv-pkg.tex
Chapter 24.
[2915] [2916]
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 []\T1/pcr/m/n/10 bam(formula,family=gaussian(),data=list(),weights=NULL,subset
=NULL, 
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 []    \T1/pcr/m/n/10 paraPen=NULL,chunk.size=10000,rho=0,AR.start=NULL,discret
e=FALSE,[] 
[2917]
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 []    \T1/pcr/m/n/10 coef=NULL,drop.unused.levels=TRUE,G=NULL,fit=TRUE,drop.in
tercept=NULL,[] 
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
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\T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known 
scale.
[2918] [2919] [2920] [2921]
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[][][]\T1/pcr/m/n/10 mgcv.parallel[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 ,
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[][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict.
gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10
 ,
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[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g
am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm
/m/n/10 ,
[2922]
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 []\T1/pcr/m/n/9 system.time(b2 <- bam(y ~ s(x0,bs=bs,k=k)+s(x1,bs=bs,k=k)+s(x2
,bs=bs,k=k)+[] 
[2923] [2924] [2925]
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[]\T1/ptm/m/n/10 The link func-tion: one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m
/n/10 , []\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cloglog" 
[]\T1/ptm/m/n/10 and
[2926] [2927]
Underfull \hbox (badness 1406) in paragraph at lines 704--705
[]\T1/ptm/m/n/10 The MKL BLAS is mut-lithreaded by de-fault. Un-der linux set-t
ing en-vi-ron-ment vari-able
[2928] [2929]
Underfull \hbox (badness 1158) in paragraph at lines 814--816
[]\T1/ptm/m/n/10 Choosing the ba-sis di-men-sion, and check-ing the choice, whe
n us-ing pe-nal-ized re-gres-sion
[2930]
Underfull \hbox (badness 1259) in paragraph at lines 877--878
[]\T1/ptm/m/n/10 Wood, S.N. (2017) Gen-er-al-ized Ad-di-tive Mod-els: An In-tro
-duc-tion with R (2nd edi-tion).
[2931]
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[2933] [2934] [2935] [2936] [2937] [2938] [2939]
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 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h + 2*b$family$data$
q^.5),col=2)[] 
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 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h - 2*b$family$data$
q^.5),col=2)[] 
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 []    \T1/pcr/m/n/9 plot(b$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor
e residuals",[] 
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 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor
+rx+obstruct[] 
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 []\T1/pcr/m/n/9 if (i==1) plot(bs$family$data$tr[ind],exp(-bs$family$data$h[in
d]),type="l",[] 
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 []      \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind])
,lwd=2,col=i)[] 
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 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights=
d,data=surv)[] 
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[2942]
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 []  \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid),
 initial = 0,[] 
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 []    \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][
nrow(um)] <- 1[] 
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 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter
polate to te[] 
[2944] [2945] [2946] [2947] [2948] [2949] [2950]
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 []\T1/pcr/m/n/9 bd <- bam(y~s(x0)+ s(x1) + s(x1,fac,bs="sz",k=5)+s(x2,k=20),di
screte=TRUE)[] 
[2951] [2952] [2953] [2954]
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 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str
ict=FALSE) 
[2955] [2956] [2957] [2958] [2959] [2960]
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 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset
=NULL,[] 
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[]\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n
/10 formula.gam[][][] []\T1/ptm/m/n/10 and also
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[2961]
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\T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known 
scale.
[2962] [2963] [2964]
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\T1/ptm/m/n/10 eral lin-ear func-tion-als of smooths, via the sum-ma-tion con-v
en-tion mech-a-nism de-scribed in
[2965] [2966]
Underfull \hbox (badness 10000) in paragraph at lines 2933--2939
[][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
gamObject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 ,
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[][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict.
gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10
 ,
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[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g
am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm
/m/n/10 ,
[2967]
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[2970] [2971]
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 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1
e-07, 
[2972]
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 []            \T1/pcr/m/n/10 maxit = 200,mgcv.tol=1e-7,mgcv.half=15, trace = F
ALSE,[] 
[2973] [2974] [2975] [2976] [2977]
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 []         \T1/pcr/m/n/10 mustart = NULL, offset = rep(0, nobs), U1 = diag(nco
l(x)),[] 
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 []         \T1/pcr/m/n/10 printWarn=TRUE,scoreType="REML",null.coef=rep(0,ncol
(x)),[] 
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 []         \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU
LL,...)[] 
[2978] [2979] [2980] [2981] [2982] [2983] [2984] [2985]
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[]\T1/ptm/m/n/10 Random ef-fects can be added to []\T1/pcr/m/n/10 gam []\T1/ptm
/m/n/10 mod-els us-ing []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms (
see
[2986] [2987]
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 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat
,method="ML")[] 
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[]\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix
ed penalty, if
[2991] [2992] [2993] [2994] [2995] [2996] [2997]
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 []  \T1/pcr/m/n/9 mod <- gam(y~s(a,bs="re")+s(b,bs="re")+s(a,b,bs="re")+s(x0,i
d=1)+s(x1,id=1)+[] 
[2998] [2999] [3000]
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 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, 
d1b = 0, 
[3001] [3002]
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[3003]
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[]\T1/ptm/m/n/10 In the event of []\T1/pcr/m/n/10 lme []\T1/ptm/m/n/10 con-ver-
gence fail-ures, con-sider mod-i-fy-ing
[3004] [3005]
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[][][]\T1/pcr/m/n/10 magic[][][] []\T1/ptm/m/n/10 for an al-ter-na-tive for cor
-re-lated data, [][][]\T1/pcr/m/n/10 te[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gam[][][][]\T1/ptm
/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 1418) in paragraph at lines 5270--5276
[][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 n
egbin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 vis.gam[][][][]\T1/ptm/m/n/1
0 ,[][][]\T1/pcr/m/n/10 pdTens[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gamm4 [
]\T1/ptm/m/n/10 ( [][]$\T1/pcr/m/n/10 https : / / cran . r-[]project .
[3006]
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[3008] [3009] [3010]
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[]\T1/ptm/m/n/10 If `outer' it-er-a-tion has been used to fit the model (see []
[][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 ar-gu-ment
Underfull \hbox (badness 2181) in paragraph at lines 5626--5627
[]\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic-
tion, used by
[3011] [3012] [3013] [3014] [3015] [3016] [3017] [3018] [3019]
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 []\T1/pcr/m/n/10 ginla(G,A=NULL,nk=16,nb=100,J=1,interactive=FALSE,integ=0,app
rox=0) 
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[]\T1/ptm/m/n/10 A pre-fit gam ob-ject, as pro-duced by []\T1/pcr/m/n/10 gam(..
.,fit=FALSE) []\T1/ptm/m/n/10 or
[3020] [3021]
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 []  \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d
ata. A simple[] 
[3022]
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 []      \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j]
,lty=lty[j])[] 
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 []  \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo
r comparison[] 
[3023] [3024] [3025]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6355--6355
 []       \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r
norm(100)*.4[] 
[3026] [3027] [3028] [3029] [3030]
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 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n
a.action, 
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 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona
lize=FALSE)[] 
Underfull \hbox (badness 1142) in paragraph at lines 6715--6719
\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[3031] [3032] [3033] [3034] [3035] [3036] [3037]
Overfull \hbox (72.78088pt too wide) in paragraph at lines 7034--7034
 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999,
all.derivs=FALSE) 
[3038] [3039] [3040]
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[3043] [3044]
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 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want
 to rule the world.",[] 
[3045]
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 []      \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y),
nthreads=1)[] 
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[3053] [3054]
Underfull \hbox (badness 1242) in paragraph at lines 8046--8047
[]\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra
nts EP/K005251/1 and
[3055] [3056]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 8133--8133
 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt
ion with bam...[] 
[3057]
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 []\T1/pcr/m/n/9 for (sim in c(1,7)) { ## cycle over uncorrelated and correlate
d covariates[] 
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 []    \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]]
,na.rm=TRUE)[] 
[3058] [3059] [3060] [3061] [3062] [3063] [3064] [3065] [3066] [3067] [3068]
[3069] [3070] [3071] [3072] [3073] [3074] [3075] [3076] [3077] [3078]
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[3080]
Underfull \hbox (badness 10000) in paragraph at lines 9533--9536
[]\T1/ptm/m/n/10 The fol-low-ing func-tions are pro-vided: []\T1/pcr/m/n/10 Dim
.pdIndot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdIdnot[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 9533--9536
[]\T1/pcr/m/n/10 corMatrix.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 logDet.pd
Idnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdConstruct.pdIdnot[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3118) in paragraph at lines 9533--9536
[]\T1/pcr/m/n/10 pdFactor.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdMatrix.p
dIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 solve.pdIdnot[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 summary.pdIdnot[]\T1/ptm/m/n/10 .
[3081]
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[]\T1/ptm/m/n/10 These func-tions ([]\T1/pcr/m/n/10 pdTens[]\T1/ptm/m/n/10 , []
\T1/pcr/m/n/10 pdConstruct.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdFactor.p
dTens[]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 3108) in paragraph at lines 9589--9592
[]\T1/pcr/m/n/10 pdMatrix.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdTens
 []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 summary.pdTens[]\T1/ptm/m/n/10 ) would n
ot nor-mally be
[3082] [3083] [3084]
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 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s
cale=-1,[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 9813--9813
 []         \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi
ds=FALSE,[] 
[3085] [3086] [3087]
Underfull \hbox (badness 1629) in paragraph at lines 9969--9974
[]\T1/ptm/m/n/10 just won't let you do it. In this case, the quick-est op-tion 
is some-times to clone the
[3088] [3089] [3090] [3091]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 10181--10181
 []        \T1/pcr/m/n/10 na.action=na.pass,cluster=NULL,discrete=TRUE,n.thread
s=1,gc.level=0,...)[] 
Underfull \hbox (badness 1062) in paragraph at lines 10218--10222
[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 type=="terms" []\T1/ptm/m/n/10 or []\T1/pc
r/m/n/10 type="iterms" []\T1/ptm/m/n/10 then terms (smooth or para-
[3092] [3093]
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 []        \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL
L,...)[] 
[3094] [3095] [3096]
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 []\T1/pcr/m/n/9 x1 <- seq(.2,.8,length=m1);x2 <- seq(.2,.8,length=m2) ## margi
nal grid points[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 10513--10513
 []\T1/pcr/m/n/9 df <- data.frame(x0=rep(.5,n),x1=rep(x1,m2),x2=rep(x2,each=m1)
,x3=rep(0,n))[] 
[3097]
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 []  \T1/pcr/m/n/9 Xi[,(i-1)*9+1:9+1] <- Xp[,(i-1)*9+1:9+1] ## Xi%*%coef(b) = s
mooth deriv i[] 
[3099]
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[]\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a
tes at which
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\T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are 
as for
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[]\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f
i-ca-tion ob-jects of class
[3100]
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[]\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a
tes at which
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\T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are 
as for
[3101]
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[]\T1/ptm/m/n/10 The smooth ob-ject will be largely what is re-turned from
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[][][]\T1/pcr/m/n/10 smooth.construct.so.smooth.spec[][][][]\T1/ptm/m/n/10 , al
-though el-e-ments []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 S [
]\T1/ptm/m/n/10 are not needed,
[3102] [3103] [3104]
Underfull \hbox (badness 1253) in paragraph at lines 10959--10961
[]\T1/ptm/m/n/10 Note that the op-ti-mized smooth-ing pa-ram-e-ter se-lec-tion 
cri-te-rion re-ported is one of GCV,
[3105] [3106] [3107] [3108] [3109]
Underfull \hbox (badness 1946) in paragraph at lines 11212--11219
[]\T1/ptm/m/n/10 The sec-ond method rep-re-sents the con-ven-tional ran-dom ef-
fects in a GAM in the same
Underfull \hbox (badness 2221) in paragraph at lines 11212--11219
\T1/ptm/m/n/10 way that the smooths are rep-re-sented --- as pe-nal-ized re-gre
s-sion terms. This method
Underfull \hbox (badness 2042) in paragraph at lines 11212--11219
\T1/ptm/m/n/10 can be used with [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10
 by mak-ing use of []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms in a 
model: see
Underfull \hbox (badness 2846) in paragraph at lines 11220--11223
[]\T1/ptm/m/n/10 Alternatively, but less straight-for-wardly, the []\T1/pcr/m/n
/10 paraPen []\T1/ptm/m/n/10 ar-gu-ment to [][][]\T1/pcr/m/n/10 gam[][][] []\T1
/ptm/m/n/10 can be used:
Underfull \hbox (badness 5862) in paragraph at lines 11220--11223
\T1/ptm/m/n/10 see [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 . If s
mooth-ing pa-ram-e-ter es-ti-ma-tion is by ML or REML (e.g.
[3110]
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 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat
,method="ML")[] 
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 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv
olving them)[] 
[3111]
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[]\T1/ptm/m/n/10 the type of resid-u-als wanted. Usu-ally one of []\T1/pcr/m/n/
10 "deviance"[]\T1/ptm/m/n/10 ,
[3112] [3113] [3114] [3115] [3116]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 11629--11629
 []\T1/pcr/m/n/10 s(..., k=-1,fx=FALSE,bs="tp",m=NA,by=NA,xt=NULL,id=NULL,sp=NU
LL,pc=NULL) 
[3117] [3118] [3119] [3120] [3121] [3122]
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 []  \T1/pcr/m/n/9 true <- mu + (del * sigma) * sinh((1/del) * asinh(qnorm(qq))
 + (eps/del))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12016--12016
 []\T1/pcr/m/n/9 b <- gam(list(accel~s(times, k=20, bs = "ad"), ~s(times, k = 1
0), ~1, ~1),[] 
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[3124]
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[]\T1/ptm/m/n/10 INTERNAL rou-tine to ap-ply ini-tial Sl re-parameterization to
 model ma-trix X, or, if
Overfull \hbox (36.78088pt too wide) in paragraph at lines 12127--12127
 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, 
cov = TRUE,[] 
[3125]
Underfull \hbox (badness 10000) in paragraph at lines 12144--12148
[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p
cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re-
Underfull \hbox (badness 10000) in paragraph at lines 12184--12188
[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p
cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re-
[3126] [3127] [3128]
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 [] \T1/pcr/m/n/9 range(er$values-um$values[ind]);range(abs(er$vectors)-abs(um$
vectors[,ind]))[] 
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[]\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f
i-ca-tion ob-jects of class
[3129]
Underfull \hbox (badness 1803) in paragraph at lines 12416--12420
\T1/ptm/m/n/10 The last en-try will be the []\T1/pcr/m/n/10 by []\T1/ptm/m/n/10
 vari-able, if []\T1/pcr/m/n/10 object$by []\T1/ptm/m/n/10 is not []\T1/pcr/m/n
/10 "NA"[]\T1/ptm/m/n/10 .
Underfull \hbox (badness 1502) in paragraph at lines 12428--12440
[]\T1/pcr/m/n/10 cs.smooth.spec []\T1/ptm/m/n/10 (cu-bic re-gres-sion splines w
ith shrinkage-to-zero); []\T1/pcr/m/n/10 cc.smooth.spec
[3130]
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[]\T1/ptm/m/n/10 method is used if there is no more spe-cific method avail-able
. Plot meth-ods can be
Underfull \hbox (badness 2970) in paragraph at lines 12445--12449
\T1/ptm/m/n/10 added for spe-cific smooth classes, see source code for []\T1/pc
r/m/n/10 mgcv:::plot.sos.smooth[]\T1/ptm/m/n/10 ,
[3131] [3132] [3133]
Underfull \hbox (badness 6876) in paragraph at lines 12640--12646
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use adap-tive smooths of on
e or two vari-ables, spec-i-fied via terms like
[3134]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3135] [3136]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3137]
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 []  \T1/pcr/m/n/9 b <- gam(y~s(x0,bs=bs,m=c(4,2))+s(x1,bs=bs)+s(x2,k=15,bs=bs,
m=c(4,3,0))+[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12865--12865
 []  \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5,
1.5) (black)[] 
[3138]
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 []  \T1/pcr/m/n/9 ## penalty defined on (-.5,1.5) gives plausible predictions 
and intervals[] 
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 []  \T1/pcr/m/n/9 ## penalty defined on whole real line gives constant width i
ntervals away[] 
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 []  \T1/pcr/m/n/9 ## penalty defined only over the data interval (0,1) gives w
ild and wide[] 
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 []  \T1/pcr/m/n/9 ## extrapolation since penalty has been \TS1/cmtt/m/n/9 `\T1
/pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] 
[3139]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a
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\T1/ptm/m/n/10 term []\T1/pcr/m/n/10 s(...,bs="cr",...)[]\T1/ptm/m/n/10 , []\T1
/pcr/m/n/10 s(...,bs="cs",...) []\T1/ptm/m/n/10 or
[3140] [3141]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3142] [3143]
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 []\T1/pcr/m/n/9 b <- gam(y~s(x,z,bs="ds",m=c(1,.5),k=50),data=data)  ## first 
deriv penalty[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13170--13170
 []\T1/pcr/m/n/9 b1 <- gam(y~s(x,z,bs="ds",m=c(2,.5),k=50),data=data) ## modifi
ed 2nd deriv[] 
[3144] [3145]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3146] [3147] [3148] [3149] [3150]
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 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m
ethod="REML")[] 
[3151]
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[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3152] [3153]
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[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 smooth.construct []\T1/ptm/m/n/10 met
hod a smooth spec-i-fi-ca-tion ob-
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\T1/ptm/m/n/10 ject, usu-ally gen-er-ated by a term []\T1/pcr/m/n/10 s(x,...,bs
="re",)[]\T1/ptm/m/n/10 . For the
Underfull \hbox (badness 7099) in paragraph at lines 13793--13796
[]\T1/pcr/m/n/10 predict.Matrix []\T1/ptm/m/n/10 method an ob-ject of class []\
T1/pcr/m/n/10 "random.effect"
[3154] [3155]
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 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with
 2 variances[] 
[3156]
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[]\T1/ptm/m/n/10 A smooth spec-i-fi-ca-tion ob-ject as pro-duced by a
Underfull \hbox (badness 7832) in paragraph at lines 13924--13930
[]\T1/pcr/m/n/10 s(...,bs="so",xt=list(bnd=bnd,...)) []\T1/ptm/m/n/10 term in a
 []\T1/pcr/m/n/10 gam []\T1/ptm/m/n/10 for-
[3157] [3158] [3159]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 14139--14139
 []\T1/pcr/m/n/9 ## notice NULL element in \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 xt\TS1
/pcr/m/n/9 ' \T1/pcr/m/n/9 list - to indicate no xt object for "cr" basis...[] 
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Underfull \vbox (badness 10000) has occurred while \output is active [3161]
Underfull \hbox (badness 10000) in paragraph at lines 14242--14250
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths on th
e sphere, via terms like
Underfull \hbox (badness 10000) in paragraph at lines 14268--14269
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3162] [3163] [3164]
Underfull \hbox (badness 7613) in paragraph at lines 14413--14416
[]\T1/ptm/m/n/10 method an ob-ject of class []\T1/pcr/m/n/10 "sz.interaction" [
]\T1/ptm/m/n/10 pro-duced by the
[3165]
Underfull \hbox (badness 1546) in paragraph at lines 14434--14435
[]\T1/ptm/m/n/10 The terms can have a smooth-ing pa-ram-e-ter per smooth, or a 
sin-gle smooth-ing pa-ram-e-
Overfull \hbox (128.58029pt too wide) in paragraph at lines 14480--14480
 []\T1/pcr/m/n/9 b <- gam(y ~ s(x)+s(f1,x,bs="sz")+s(f2,x,bs="sz")+s(f1,f2,x,bs
="sz",id=1),data=dat,method="REML")[] 
[3166] [3167] [3168]
Underfull \hbox (badness 3396) in paragraph at lines 14626--14629
[][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths of an
y num-ber of vari-ables, spec-i-fied via terms like
Underfull \hbox (badness 10000) in paragraph at lines 14671--14673
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3169] [3170] [3171] [3172] [3173] [3174]
Underfull \hbox (badness 10000) in paragraph at lines 14962--14964
[]\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see
[3175]
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 t2[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 tprs[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/
10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 p.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 d.sp
line[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mrf[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 soap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Spherical
.Spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 adaptive.smooth[][][][]\T1
/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14996--15000
[][][]\T1/pcr/m/n/10 user.defined.smooth[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/
m/n/10 smooth.construct.re.smooth.spec[][][][]\T1/ptm/m/n/10 ,
[3176] [3177] [3178] [3179] [3180]
Underfull \hbox (badness 2158) in paragraph at lines 15285--15285
[]\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma-
trix from
[3181]
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 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0,
centre=FALSE)[] 
[3182] [3183]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 15498--15498
 []                  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars
"),...)[] 
[3184] [3185]
Underfull \hbox (badness 4846) in paragraph at lines 15629--15632
[]\T1/ptm/m/n/10 The es-ti-mated co-vari-ance ma-trix of the pa-ram-e-ters (or 
es-ti-ma-tors if
[3186] [3187] [3188] [3189] [3190] [3191] [3192] [3193] [3194] [3195] [3196]
[3197] [3198] [3199] [3200] [3201] [3202] [3203] [3204] [3205]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 16847--16847
 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL,
unconditional=FALSE, ...)[] 
[3206]
Underfull \hbox (badness 1715) in paragraph at lines 16869--16870
[]\T1/ptm/m/n/10 Basically, just ex-tracts []\T1/pcr/m/n/10 object$Ve[]\T1/ptm/
m/n/10 , []\T1/pcr/m/n/10 object$Vp []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 object
$Vc []\T1/ptm/m/n/10 (if avail-able) from a
[3207] [3208] [3209]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 17059--17059
 []\T1/pcr/m/n/10 XWXd(X,w,k,ks,ts,dt,v,qc,nthreads=1,drop=NULL,ar.stop=-1,ar.r
ow=-1,ar.w=-1, 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 17061--17061
 []\T1/pcr/m/n/10 XWyd(X,w,y,k,ks,ts,dt,v,qc,drop=NULL,ar.stop=-1,ar.row=-1,ar.
w=-1,lt=NULL)[] 
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 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt=
NULL)[] 
[3210]
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[]\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows
Underfull \hbox (badness 1668) in paragraph at lines 17083--17084
[]\T1/pcr/m/n/10 (ar.stop[i-1]+1):ar.stop[i] []\T1/ptm/m/n/10 of the rows se-le
cted by []\T1/pcr/m/n/10 ar.row
[3211]
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[3213]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17271--17271
 []\T1/pcr/m/n/9 ## 1. If the zero inflation rate becomes decoupled from the li
near predictor,[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 17272--17272
 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun
ded in regions[] 
[3214]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17284--17284
 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val
ues, to check we[] 
[3215] [3216] [3217]) (./nlme-pkg.tex [3218]
Chapter 25.
[3219]
Underfull \hbox (badness 1009) in paragraph at lines 84--93
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3220]
Underfull \hbox (badness 1009) in paragraph at lines 174--183
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3221] [3222] [3223] [3224] [3225]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 454--454
 []  \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3226] [3227]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 595--595
 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 ---------------------------
---------------[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 611--611
 []\T1/pcr/m/n/9 # Compare an "lme" object with a "gls" object (test would be n
on-sensical!)[] 
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 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 ---------------------------
---------------[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 621--621
 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 ---------------------------
---------------[] 
[3228] [3229] [3230] [3231] [3232] [3233] [3234] [3235]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1084--1084
 []                  \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil
lary fissure"),[] 
[3236]
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[]\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 http://stat.gamma.rug.nl/snijders/multilevel
.htm[]\T1/ptm/m/n/10 ', the first edi-tion of
[3237] [3238] [3239] [3240] [3241] [3242] [3243]
Underfull \hbox (badness 10000) in paragraph at lines 1625--1628
[][][]\T1/pcr/m/n/10 lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fixed.
effects.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ranef.lmList[][][][
]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.ranef.lmList[][][][]\T1/ptm/m/n/10 
,
[3244]
Underfull \hbox (badness 3780) in paragraph at lines 1642--1644
[]\T1/ptm/m/n/10 This method func-tion ex-tracts the co-ef-fi-cients as-so-ci-a
ted with each com-po-nent of the
[3245] [3246] [3247] [3248] [3249]
Underfull \hbox (badness 2042) in paragraph at lines 1989--1995
\T1/ptm/m/n/10 is in-ner to the []\T1/pcr/m/n/10 displayLevel []\T1/ptm/m/n/10 
group-ing fac-tor. If equal to []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 ,
[3250] [3251]
Underfull \hbox (badness 1132) in paragraph at lines 2141--2143
[]\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac
ted us-ing the
[3252] [3253]
Underfull \hbox (badness 4168) in paragraph at lines 2252--2258
[][][]\T1/pcr/m/n/10 ACF.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corAR
MA[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 Dim.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 ,
[3254]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2277--2277
 []  \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3255] [3256] [3257] [3258] [3259] [3260] [3261] [3262]
Underfull \hbox (badness 10000) in paragraph at lines 2842--2846
[][][]\T1/pcr/m/n/10 corFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cor
Matrix.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 recalc.corStruct[
][][][]\T1/ptm/m/n/10 ,
[3263] [3264] [3265] [3266] [3267] [3268pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d
uplicate ignored
<argument> ...shipout:D \box_use:N \l_shipout_box 
                                                  
l.3185 ...trix(cs1, covariate = 1:4, corr = FALSE)
                                                  ] [3269] [3270] [3271]
[3272] [3273] [3274]
Underfull \hbox (badness 6493) in paragraph at lines 3577--3585
[][][]\T1/pcr/m/n/10 corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corGau
s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corLin[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corSp
her[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T
1/ptm/m/n/10 ,
[3275] [3276] [3277] [3278] [3279] [3280] [3281] [3282] [3283] [3284] [3285]
[3286] [3287] [3288] [3289] [3290] [3291] [3292] [3293] [3294] [3295] [3296]
[3297] [3298]
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[][][]\T1/pcr/m/n/10 getCovariate.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/p
cr/m/n/10 getCovariate.data.frame[][][][]\T1/ptm/m/n/10 ,
[3299] [3300] [3301] [3302] [3303] [3304] [3305]
Underfull \hbox (badness 10000) in paragraph at lines 5591--5594
[][][]\T1/pcr/m/n/10 getGroupsFormula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGroups
.gls[][][][]\T1/ptm/m/n/10 ,
[3306] [3307] [3308] [3309] [3310] [3311] [3312] [3313] [3314]
Underfull \hbox (badness 2799) in paragraph at lines 6097--6103
\T1/ptm/m/n/10 covariance ma-trix, ei-ther []\T1/pcr/m/n/10 "random.effects" []
\T1/ptm/m/n/10 for the random-effects
[3315]
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[]\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [
]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 ,
[3316]
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[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gl
sControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 glsObject[][][][]\T1/ptm/
m/n/10 , [][][]\T1/pcr/m/n/10 glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 plot.gls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gls[][][][]
\T1/ptm/m/n/10 ,
[3317]
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[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3318] [3319] [3320] [3321]
Underfull \hbox (badness 7133) in paragraph at lines 6558--6562
[]\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [
]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 ,
[3322]
Underfull \hbox (badness 10000) in paragraph at lines 6655--6661
[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gn
lsControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsObject[][][][]\T1/pt
m/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc
r/m/n/10 predict.gnls[][][][]\T1/ptm/m/n/10 ,
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 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min
Scale = 0.001, 
[3323]
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[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3324] [3325] [3326] [3327]
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[][][]\T1/pcr/m/n/10 formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gappl
y[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gsummary[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nff
GroupedData[][][][]\T1/ptm/m/n/10 ,
[3328]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7007--7007
 []                \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla
ry fissure" ),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7012--7012
 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new )   # fixed and groups formulae extracted
 from object[] 
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[]\T1/ptm/m/n/10 an ob-ject to be sum-ma-rized - usu-ally a []\T1/pcr/m/n/10 gr
oupedData []\T1/ptm/m/n/10 ob-ject or a
[3329] [3330] [3331]
Underfull \hbox (badness 10000) in paragraph at lines 7249--7254
[][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr
/m/n/10 Initialize.lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi
alize.glsStruct[][][][]\T1/ptm/m/n/10 ,
[3332] [3333] [3334]
Underfull \hbox (badness 1997) in paragraph at lines 7400--7408
[]\T1/ptm/m/n/10 an op-tional list with con-trol pa-ram-e-ters for the ini-tial
-iza-tion and op-ti-
Underfull \hbox (badness 2205) in paragraph at lines 7400--7408
\T1/ptm/m/n/10 miza-tion al-go-rithms used in []\T1/pcr/m/n/10 lme[]\T1/ptm/m/n
/10 . De-faults to []\T1/pcr/m/n/10 list(niterEM=20,
Underfull \hbox (badness 3118) in paragraph at lines 7423--7426
[][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initializ
e.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.varFunc[][][][]\T1/ptm/m/
n/10 ,
[3335] [3336] [3337]
Underfull \hbox (badness 3354) in paragraph at lines 7639--7641
[]\T1/ptm/m/n/10 linear model co-ef-fi-cients, only present when []\T1/pcr/m/n/
10 which []\T1/ptm/m/n/10 is not equal to
[3338] [3339] [3340] [3341] [3342] [3343] [3344] [3345]
Underfull \hbox (badness 10000) in paragraph at lines 8166--8183
[][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lm
e.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme.groupedData[][][][]\T
1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmeControl[][][][]\T1/ptm/m/n/10 , [][][]\T
1/pcr/m/n/10 lmeObject[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 8166--8183
[][][]\T1/pcr/m/n/10 lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmL
ist[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/1
0 , [][][]\T1/pcr/m/n/10 plot.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
predict.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qqnorm.lme[][][][]\T1/
ptm/m/n/10 ,
[3346]
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 []    \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data 
= TRUE)[] 
Underfull \hbox (badness 1642) in paragraph at lines 8218--8240
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o
f the form
[3347] [3348] [3349] [3350]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8483--8483
 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni
terEM = 25, 
Underfull \hbox (badness 1189) in paragraph at lines 8508--8510
[]\T1/ptm/m/n/10 maximum num-ber of eval-u-a-tions of the ob-jec-tive func-tion
 per-mit-ted for
[3351]
Underfull \hbox (badness 10000) in paragraph at lines 8531--8533
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
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 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio
ns be printed[] 
[3352] [3353] [3354] [3355] [3356] [3357] [3358] [3359] [3360] [3361] [3362]
[3363]
Underfull \hbox (badness 10000) in paragraph at lines 9337--9344
[][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 gls[][][][
]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.corStruct[][][][]\T1/ptm/m/n/10 ,
 [][][]\T1/pcr/m/n/10 logLik.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 logLik.lmeStruct[][][][]\T1/ptm/m/n/10 ,
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9348--9348
 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me
thod = "ML") 
[3364] [3365] [3366] [3367] [3368]pdfTeX warning (ext4): destination with the s
ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9699 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.Matrix.1}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.9699 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                   [3369]
Underfull \hbox (badness 10000) in paragraph at lines 9719--9722
[]\T1/ptm/m/n/10 a ma-trix, or list of ma-tri-ces, with the same di-men-sions a
s
Underfull \hbox (badness 3108) in paragraph at lines 9763--9766
[]\T1/ptm/m/n/10 a ma-trix with the new val-ues to be as-signed to the positive
-definite
Underfull \hbox (badness 2521) in paragraph at lines 9763--9766
\T1/ptm/m/n/10 ma-trix rep-re-sented by []\T1/pcr/m/n/10 object[]\T1/ptm/m/n/10
 . Must have the same di-men-sions as
[3370] [3371] [3372] [3373] [3374] [3375] [3376] [3377] [3378] [3379] [3380]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10443--10443
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights, 
[3381]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10447--10447
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
Underfull \hbox (badness 1596) in paragraph at lines 10476--10502
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o
f the form
[3382] [3383]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10630--10630
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
[3384] [3385] [3386]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 10781--10781
 []            \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma =
 NULL, ...)[] 
Underfull \hbox (badness 2213) in paragraph at lines 10792--10797
[]\T1/ptm/m/n/10 maximum num-ber of it-er-a-tions for [][][]\T1/pcr/m/n/10 nlmi
nb[][][] []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 iter.max[]\T1/ptm/m/n/10 ) or the [
][][]\T1/pcr/m/n/10 nlm[][][]
Underfull \hbox (badness 6961) in paragraph at lines 10814--10818
[]\T1/ptm/m/n/10 a log-i-cal value passed as the []\T1/pcr/m/n/10 trace []\T1/p
tm/m/n/10 to [][][]\T1/pcr/m/n/10 nlminb[][][](.., control=
[3387]
Underfull \hbox (badness 10000) in paragraph at lines 10833--10835
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3388] [3389] [3390] [3391]
Overfull \hbox (96.18033pt too wide) in paragraph at lines 11129--11129
 []\T1/pcr/m/n/9 cfm1 <- confint(fm1) # via profiling each % FIXME: only *one* 
message instead of one *each*[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 11130--11130
 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4
.0.0;  ("matrix" in older R)[] 
[3392] [3393] [3394] [3395] [3396] [3397]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11520--11520
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3398] [3399] [3400] [3401] [3402] [3403]
Underfull \hbox (badness 6268) in paragraph at lines 11907--11917
[][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC
ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdMatrix[][][][]\T1/ptm/m/n/10 ,
[3404] [3405] [3406] [3407]
Underfull \hbox (badness 10000) in paragraph at lines 12168--12174
[][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 coef.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1
/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/
pcr/m/n/10 pdConstruct[][][][]\T1/ptm/m/n/10 ,
[3408] [3409] [3410] [3411] [3412]
Underfull \hbox (badness 6876) in paragraph at lines 12490--12492
[]\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 value []\T1/ptm/m/n/10 is an \T1/ptm/m/it/
10 ini-tial-ized []\T1/pcr/m/n/10 pdMat []\T1/ptm/m/n/10 ob-ject, []\T1/pcr/m/n
/10 object []\T1/ptm/m/n/10 will be con-structed from
[3413] [3414]
Underfull \hbox (badness 2452) in paragraph at lines 12646--12653
[][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC
ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/
10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
pdNatural[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdSymm[][][][]\T1/ptm/m/
n/10 , [][][]\T1/pcr/m/n/10 reStruct[][][][]\T1/ptm/m/n/10 ,
[3415]
Underfull \hbox (badness 10000) in paragraph at lines 12712--12718
[][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 pdMatrix.reStruct[][][][]\T1/ptm/m/n/10 ,
[3416] [3417] [3418] [3419] [3420] [3421] [3422] [3423] [3424]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 13301--13301
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3425] [3426] [3427] [3428] [3429]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13666--13666
 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 
0, id = 0.05)[] 
[3430]
Underfull \hbox (badness 10000) in paragraph at lines 13693--13696
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nffGroupe
dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a
[3431]
Underfull \hbox (badness 1838) in paragraph at lines 13736--13743
[]\T1/ptm/m/n/10 an op-tional log-i-cal func-tion or func-tion. If []\T1/pcr/m/
n/10 TRUE []\T1/ptm/m/n/10 and ei-ther []\T1/pcr/m/n/10 inner
Underfull \hbox (badness 3713) in paragraph at lines 13736--13743
[]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 innerGroups []\T1/ptm/m/n/10 are non-[]\T1
/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , a leg-end for the dif-fer-ent []\T1/pcr/m/n/
10 inner
Overfull \hbox (12.78088pt too wide) in paragraph at lines 13793--13793
 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect,
 panel,[] 
[3432]
Underfull \hbox (badness 10000) in paragraph at lines 13800--13803
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nfnGroupe
dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a
Underfull \hbox (badness 2469) in paragraph at lines 13800--13803
[]\T1/pcr/m/n/10 groupedData []\T1/ptm/m/n/10 ob-ject with a nu-meric pri-mary 
co-vari-ate and a sin-gle
[3433]
Underfull \hbox (badness 10000) in paragraph at lines 13908--13911
[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nmGrouped
Data[]\T1/ptm/m/n/10 , rep-re-sent-ing a
[3434] [3435]
Underfull \hbox (badness 10000) in paragraph at lines 14002--14004
[][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 c
ollapse.groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nfnGroupe
dData[][][][]\T1/ptm/m/n/10 ,
[3436] [3437] [3438] [3439] [3440] [3441] [3442] [3443]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 14526--14526
 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female",
"Male","Male"),[] 
[3444] [3445] [3446] [3447] [3448] [3449] [3450] [3451] [3452]pdfTeX warning (e
xt4): destination with the same identifier (name{Rfn.random.effects}) has been 
already used, duplicate ignored
<to be read again> 
                   \relax 
l.15179 ...Extract Random Effects}{random.effects}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.random.effects.1}) has been already us
ed, duplicate ignored
<to be read again> 
                   \relax 
l.15179 ...Extract Random Effects}{random.effects}
                                                   [3453] [3454] [3455]
[3456] [3457] [3458] [3459] [3460] [3461] [3462] [3463]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 15826--15826
 []\T1/pcr/m/n/9 plot(Remifentanil, type = "l", lwd = 2) # shows the 65 patient
s\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 remi profiles 
[3464]
Underfull \hbox (badness 1009) in paragraph at lines 15878--15887
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3465] [3466]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 16025--16025
 []          \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi
st = FALSE, ...)[] 
[3467] [3468] [3469] [3470] [3471]
Underfull \hbox (badness 10000) in paragraph at lines 16360--16366
[][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 l
me[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [
][][]\T1/pcr/m/n/10 solve.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10
 summary.reStruct[][][][]\T1/ptm/m/n/10 ,
[3472]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 16392--16392
 []         \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG
en, ...)[] 
[3473] [3474] [3475] [3476] [3477] [3478] [3479]
Underfull \hbox (badness 1728) in paragraph at lines 16878--16881
[]\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou
t-put in the
[3480] [3481] [3482] [3483] [3484]
Underfull \hbox (badness 1803) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 of an Identity" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdIdent[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Positive-Definite,
Underfull \hbox (badness 10000) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 Natural Parametrization" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 p
dNatural[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General
Underfull \hbox (badness 7888) in paragraph at lines 17212--17221
\T1/pcr/m/n/10 Positive-Definite" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdSymm[
]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 data.class(object)
[3485]
Underfull \hbox (badness 10000) in paragraph at lines 17283--17284
[]\T1/pcr/m/n/10 "Constant plus power of variance
Underfull \hbox (badness 10000) in paragraph at lines 17284--17285
[]\T1/pcr/m/n/10 "Constant plus proportion of variance
[3486] [3487] [3488] [3489]
Underfull \hbox (badness 10000) in paragraph at lines 17534--17542
[][][]\T1/pcr/m/n/10 varComb[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varCo
nstPower[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varConstProp[][][][]\T1/p
tm/m/n/10 , [][][]\T1/pcr/m/n/10 varExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 varFixed[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varIdent[][][][]\T1
/ptm/m/n/10 ,
[3490] [3491] [3492] [3493]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 17806--17806
 []\T1/pcr/m/n/9 # Generate some synthetic data using the two-component error m
odel and use 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17808--17808
 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v
ariance function[] 
[3494] [3495] [3496] [3497] [3498] [3499]
Underfull \hbox (badness 10000) in paragraph at lines 18244--18254
[][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n
/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co
rLin[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 18244--18254
[][][]\T1/pcr/m/n/10 Variogram.corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m
/n/10 Variogram.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogr
am.corSpher[][][][]\T1/ptm/m/n/10 ,
[3500]
Underfull \hbox (badness 3579) in paragraph at lines 18282--18287
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3501]
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3502]
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3503]
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[]\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 "[][]corR
atio[][][]"[]\T1/ptm/m/n/10 , rep-re-sent-ing an Ra-tio-nal
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\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3504]
Underfull \hbox (badness 3579) in paragraph at lines 18535--18540
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
Underfull \hbox (badness 10000) in paragraph at lines 18568--18577
[][][]\T1/pcr/m/n/10 corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Va
riogram[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.default[][][][]\
T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 18568--18577
[][][]\T1/pcr/m/n/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/
n/10 Variogram.corLin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co
rRatio[][][][]\T1/ptm/m/n/10 ,
[3505]
Underfull \hbox (badness 3579) in paragraph at lines 18607--18612
\T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p
tm/m/n/10 , in which case a se-quence
[3506] [3507]
Underfull \hbox (badness 1009) in paragraph at lines 18753--18762
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3508] [3509]
Underfull \hbox (badness 1009) in paragraph at lines 18885--18894
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3510] [3511] [3512] [3513] [3514] [3515] [3516] [3517] [3518]) (./nnet-pkg.tex
Chapter 26.
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.multinom}
) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.47 ...t Multinomial Log-linear Models}{multinom}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.multinom.1}) has been already used, du
plicate ignored
<to be read again> 
                   \relax 
l.47 ...t Multinomial Log-linear Models}{multinom}
                                                   [3519]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 71--71
 []         \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored =
 FALSE,[] 
[3520] [3521] [3522]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 371--371
 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3523]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 428--428
 []\T1/pcr/m/n/9 targets <- matrix(c(rep(c(1,0,0),50), rep(c(0,1,0),50), rep(c(
0,0,1),50)),[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 431--431
 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay
=5e-4, maxit=200)[] 
[3524] [3525]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 511--511
 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3526]) (./rpart-pkg.tex
Chapter 27.
[3527] [3528] [3529] [3530]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 324--324
 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse =
 TRUE, ...)[] 
[3531]
Underfull \hbox (badness 2351) in paragraph at lines 349--353
\T1/ptm/m/n/10 age: []\T1/pcr/m/n/10 pretty = 0 []\T1/ptm/m/n/10 im-plies []\T1
/pcr/m/n/10 minlength = 0L[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pretty = NULL []\
T1/ptm/m/n/10 im-plies
[3532] [3533] [3534]
Underfull \hbox (badness 1442) in paragraph at lines 592--598
[]\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , the leaf nodes wil
l be at the hor-i-zon-tal plot co-or-di-nates of
[3535] [3536]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 738--738
 []     \T1/pcr/m/n/10 filename = paste(deparse(substitute(tree)), ".ps", sep =
 ""),[] 
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[]\T1/ptm/m/n/10 Logical. If []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault),
 adds to the la-bel
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\T1/pcr/m/n/10 #events level1/ #events level2/ \T1/ptm/m/n/10 etc. for method [
]\T1/pcr/m/n/10 class[]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 n
[3537] [3538] [3539]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 915--915
 []\T1/pcr/m/n/9 predict(fit, type = "matrix") # level number, class frequencie
s, probabilities[] 
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 []\T1/pcr/m/n/10 print(x, minlength = 0, spaces = 2, cp, digits = getOption("d
igits"),[] 
[3540] [3541] [3542] [3543]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 1180--1180
 []\T1/pcr/m/n/10 rpart(formula, data, weights, subset, na.action = na.rpart, m
ethod, 
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 []      \T1/pcr/m/n/10 model = FALSE, x = FALSE, y = TRUE, parms, control, cos
t, ...)[] 
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[]\T1/ptm/m/n/10 a list of op-tions that con-trol de-tails of the []\T1/pcr/m/n
/10 rpart []\T1/ptm/m/n/10 al-go-rithm. See
[3544]
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 []\T1/pcr/m/n/9 par(mfrow = c(1,2), xpd = NA) # otherwise on some devices the 
text is clipped[] 
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 []\T1/pcr/m/n/10 rpart.control(minsplit = 20, minbucket = round(minsplit/3), c
p = 0.01, 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1304--1304
 []              \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate 
= 2, xval = 10,[] 
[3545] [3546] [3547] [3548] [3549] [3550] [3551]
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[]\T1/ptm/m/n/10 the ploidy sta-tus of the tu-mor, from flow cy-tom-e-try. Val-
ues are `[]\T1/pcr/m/n/10 diploid[]\T1/ptm/m/n/10 ',
[3552]
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 []     \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n =
 FALSE,[] 
[3553] [3554] [3555]) (./spatial-pkg.tex [3556]
Chapter 28.
[3557] [3558] [3559] [3560] [3561] [3562]
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[3563] [3564] [3565] [3566] [3567] [3568] [3569] [3570] [3571] [3572] [3573]
[3574] [3575]) (./survival-pkg.tex [3576]
Chapter 29.
[3577] [3578]
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 []\T1/pcr/m/n/9 aareg(formula = Surv(time, status) ~ age + sex + ph.ecog, data
 = lung, nmin = 1[] 
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 []\T1/pcr/m/n/9 ## Not run: lines(lfit2[4], col=2)  # Nearly the same, until t
he last point[] 
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 []\T1/pcr/m/n/9 # Chronic Granuomatous Disease.  See section 8.5 of Therneau a
nd Grambsch.[] 
[3579] [3580]
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[]\T1/ptm/m/n/10 an op-tional list or vec-tor of group-ing el-e-ments, each as 
long as
[3581] [3582]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.aml}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.384 ... Myelogenous Leukemia survival data}{aml}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.aml.1}) has been already used, duplica
te ignored
<to be read again> 
                   \relax 
l.384 ... Myelogenous Leukemia survival data}{aml}
                                                   [3583]
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 []\T1/pcr/m/n/9 fit <- coxph(Surv(futime, fustat) ~ resid.ds *rx + ecog.ps, da
ta = ovarian) 
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 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d
ata=ovarian)[] 
[3584]
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 []    \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog),
 lung)[] 
[3585]
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[]\T1/ptm/m/n/10 If H(t; z) is the pre-dicted cu-mu-la-tive haz-ard for an ob-s
er-va-tion with co-vari-ate vec-tor z,
[3586] [3587] [3588]
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 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) #
2 year survival 
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 []\T1/pcr/m/n/10 brier(fit, times, newdata, ties = TRUE, detail = FALSE, timef
ix = TRUE, 
[3589]
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 []    \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan",
"II.Borgan"),[] 
[3590] [3591] [3592]
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 []   \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz
e=stratsizes,[] 
[3593] [3594]
Underfull \hbox (badness 1097) in paragraph at lines 1205--1207
[]\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi
al and negative-binomial data.
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 []\T1/pcr/m/n/9 ppois(4, 10.24153)     #chance of seeing 4 or fewer events wit
h large rate[] 
[3595] [3596]
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 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat
um), data=infert) 
[3597]
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 []\T1/pcr/m/n/9 marginal.model <- coxph(Surv(time, status) ~ rx, data= rats, c
luster=litter, 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colon}) h
as been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1407 ...erapy for Stage B/C colon cancer}{colon}
                                                   [3598] [3599]
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 []  \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke
epstrata=10, ...)[] 
[3600] [3601] [3602]
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 []\T1/pcr/m/n/9 options(na.action = na.exclude)   # predict all 1384 obs, incl
uding missing[] 
[3603]
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 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob
al=TRUE) 
[3604] [3605] [3606] [3607]
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[]\T1/ptm/m/n/10 One user mis-take that has re-cently arisen is to slav-ishly f
ol-low the ad-vice of
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\T1/ptm/m/n/10 some cod-ing guides and prepend []\T1/pcr/m/n/10 survival:: []\T
1/ptm/m/n/10 onto ev-er-thing, in-clud-ing the spe-
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\T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv
(time, status) ~ age +
[3608] [3609]
Underfull \hbox (badness 3861) in paragraph at lines 2238--2242
[][][]\T1/pcr/m/n/10 coxph.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
coxphms.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxph.control[][][]
[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cluster[][][][]\T1/ptm/m/n/10 , [][][]\
T1/pcr/m/n/10 strata[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Surv[][][][]\
T1/ptm/m/n/10 ,
[3610]
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 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix
=TRUE)[] 
[3611] [3612] [3613] [3614] [3615] [3616] [3617] [3618]
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 [] \T1/pcr/m/n/9 [1] "extreme"     "logistic"    "gaussian"    "weibull"     "
exponential"[] 
[3619]
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 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, 
etype, 
[3620] [3621] [3622]
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 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t
df = 5,[] 
[3623] [3624] [3625]
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[]\T1/ptm/m/n/10 outcome: []\T1/pcr/m/n/10 censor[]\T1/ptm/m/n/10 , []\T1/pcr/m
/n/10 thymic lymphoma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 reticulum cell sarcoma
 other
[3627] [3628]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3614--3614
 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt
y(id), kidney) 
[3629]
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 []           \T1/pcr/m/n/9 factor(c(0, 1, 2,1,0,2), 0:2, c("censored", "progre
ssion", "death")))[] 
Underfull \hbox (badness 1389) in paragraph at lines 3663--3665
[]\T1/ptm/m/n/10 Often used to add the ex-pected sur-vival curve(s) to a Kaplan
-Meier plot gen-er-ated with
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 []        \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar
csin"),[] 
[3630] [3631]
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 []                 \T1/pcr/m/n/9 rmap=list(sex=sex, age=age*365.35, year=as.Da
te(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 1979/01/01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] 
[3632] [3633]
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 [] [] 
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[3635]
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 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential
ly the same.[] 
[3636] [3637] [3638] [3639] [3640] [3641] [3642] [3643]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4522--4522
 []                    \T1/pcr/m/n/9 entry.dt = as.Date(paste("2011", 1:10, "5"
, sep=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 -\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] 
[3644] [3645]
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 []\T1/pcr/m/n/9 tdata <- data.frame(x= lung$age, y = 10*log(lung$age-35) + rno
rm(228, 0, 2))[] 
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 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4681--4681
 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1])  # differences: yhat[2:
4] - yhat[1][] 
[3646]
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[3648] [3649] [3650]
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 []        \T1/pcr/m/n/10 xlab="Time", ylab, lty=1:2, col=1, lwd=1, hr=FALSE, p
lot=TRUE, ...)[] 
[3651] [3652]
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 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca
le=1,[] 
[3653] [3654] [3655]
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 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), 
collapse,[] 
[3656] [3657]
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 []\T1/pcr/m/n/9 mresid <- (lung$status-1) - predict(fit, type=\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 expected\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ) #Martingale resid[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5482--5482
 []  \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means
, na.rm=TRUE)[] 
[3658]
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 []\T1/pcr/m/n/9 pct <- 1:98/100   # The 100th percentile of predicted survival
 is at +infinity[] 
[3659]
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 []  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE
, ...)[] 
[3660]
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[]\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.survfit"[]\T1/pt
m/m/n/10 , which is the re-sult of the
[3661] [3662] [3663] [3664]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5970--5970
 []\T1/pcr/m/n/9 rhat <- predict(rfit, newdata=expand.grid(ph.ecog=0:3, sex=1:2
), se.fit=TRUE)[] 
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 []\T1/pcr/m/n/9 # the estimate for ph.ecog=3 is very unstable (n=1), pseudoval
ues smooth it.[] 
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 []\T1/pcr/m/n/9 # In all the above we should be using the robust variance, e.g
., svyglm, but[] 
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 []\T1/pcr/m/n/10 pspline(x, df=4, theta, nterm=2.5 * df, degree=3, eps=0.1, me
thod, 
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 []   \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co
mbine, ...)[] 
[3665] [3666] [3667]
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 []  \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year=
entry.dt),[] 
[3668]
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 []\T1/pcr/m/n/9 pfit <- pyears(Surv(ptime/365.25, pstat) ~ temp.yr + temp.age 
+ sex,  mgus,[] 
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 []\T1/pcr/m/n/9 fit1 <- pyears(Surv(stop/365.25, event) ~ cut(age + 48, c(0,50
,60,70,100)) +[] 
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 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5
0,60,70,100)) +[] 
[3669] [3670] [3671] [3672]
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[3674] [3675]
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 []\T1/pcr/m/n/9 #  natural target, an estimate of the number of replacements b
y a given time[] 
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 []\T1/pcr/m/n/9 # When two valve seats failed at the same inspection, we need 
to jitter one[] 
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 []\T1/pcr/m/n/9 ties <- which(with(valveSeat, diff(id)==0 & diff(time)==0))  #
first of a tie[] 
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 []\T1/pcr/m/n/9 vdata$time1 <- ifelse(!duplicated(vdata$id), 0, c(0, temp[-len
gth(temp)]))[] 
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 []       \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe
tas")), ...)[] 
[3676] [3677]
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 []    \T1/pcr/m/n/10 type="pstate", collapse=FALSE, weighted= collapse, data.f
rame=FALSE,[] 
[3678]
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 []\T1/pcr/m/n/10 residuals(object, type=c("response", "deviance","dfbeta","dfb
etas",[] 
Underfull \hbox (badness 1043) in paragraph at lines 6986--6989
[]\T1/pcr/m/n/10 "dfbetas"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "working"[]\T1/pt
m/m/n/10 , []\T1/pcr/m/n/10 "ldcase"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lsresp
"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ldshape"[]\T1/ptm/m/n/10 , and
[3679] [3680] [3681] [3682] [3683]
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 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the
ta=5), lung)[] 
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 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog
, theta=1), lung)[] 
[3684] [3685] [3686]
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 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id
, timefix = TRUE, 
[3687]
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 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)]  # rem
ove duplicate times[] 
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 []\T1/pcr/m/n/9 wt2 <- rttright(Surv(dtime, death) ~ hormon, rotterdam, times=
 365*c(3, 5))[] 
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solder}) 
has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7569 ...ata from a soldering experiment}{solder}
                                                   [3688] [3689]
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 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1,
 col = 1, 
[3690] [3691] [3692] [3693] [3694]
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 []\T1/pcr/m/n/10 event = TRUE, pyears = TRUE, expected = TRUE, rate = FALSE, r
r =expected,[] 
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 []\T1/pcr/m/n/10 ci.r = FALSE, ci.rr = FALSE, totals=FALSE, legend = TRUE, vli
ne = FALSE,[] 
[3695] [3696]
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 []  \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/
10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, dosum, ...
)[] 
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 []  \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/
10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, ...)[] 
[3697] [3698] [3699]
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 []    \T1/pcr/m/n/10 type=c(\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 right\TS1/pcr/m/n/
10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 left\TS1/pcr/m/n/10 '\T1/p
cr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval\TS1/pcr/m/n/10 '\T1/pcr/m/
n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 counting\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 
, \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval2\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \T
S1/pcr/m/n/10 '\T1/pcr/m/n/10 mstate\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ),[] 
[3700] [3701] [3702]
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 median[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10
 quantile []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 meth-ods 
first con-struct a sur-vival curve us-ing
[3703] [3704]
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 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat
e0="(s0)", 
[3705] [3706]
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 []\T1/pcr/m/n/10 survcondense(formula, data, subset, weights, na.action= na.pa
ss, id, 
[3707] [3708] [3709]
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 []                  \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1
, year=accept.dt),[] 
[3710]
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 []        \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv
idual.h",[] 
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[]\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre
-dicted sur-vival
[3711]
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 []                      \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d
t-entry.dt)),[] 
[3712]
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 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival 
by 1/2 years[] 
[3713] [3714] [3715]
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[][][]\T1/pcr/m/n/10 survfit.formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 survfit.coxph[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 survfit.object[][
][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.survfit[][][][]\T1/ptm/m/n/10 
,
[3716]
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 []        \T1/pcr/m/n/10 se.fit=TRUE, conf.int=.95, individual=FALSE, stype=2,
 ctype,[] 
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 []        \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", 
"arcsin"),[] 
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 []        \T1/pcr/m/n/10 se.fit=FALSE, conf.int=.95, individual=FALSE, stype=2
, ctype,[] 
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 []        \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", 
"arcsin"),[] 
[3717] [3718] [3719]
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 []        \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi
x=TRUE,[] 
[3720]
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[]\T1/ptm/m/n/10 by de-fault, the surv-fit rou-tines only re-turn in-for-ma-tio
n at the
[3721]
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\T1/pcr/m/n/10 ctype=1[]\T1/ptm/m/n/10 , "fleming-harrington" which is equiv-a-
lent to []\T1/pcr/m/n/10 stype=2,
[3722] [3723]
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 []\T1/pcr/m/n/9 #  There are no interval censored subjects, only left-censored
 (status=3),[] 
[3724] [3725] [3726] [3727] [3728]
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 []\T1/pcr/m/n/10 survfitcoxph.fit(y, x, wt, x2, risk, newrisk, strata, se.fit,
 survtype, 
[3729]
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[]\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th
e time range
[3730]
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 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # 
use concordance 
[3731] [3732]
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\T1/ptm/m/n/10 it is as-sumed to name an el-e-ment from [][][]\T1/pcr/m/n/10 su
rvreg.distributions[][][][]\T1/ptm/m/n/10 .
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\T1/ptm/m/n/10 These in-clude []\T1/pcr/m/n/10 "weibull"[]\T1/ptm/m/n/10 , []\T
1/pcr/m/n/10 "exponential"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "gaussian"[]\T1/p
tm/m/n/10 ,
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[]\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 ,[]\T1/pcr/m/n/10 "lognormal" []\T1
/ptm/m/n/10 and []\T1/pcr/m/n/10 "loglogistic"[]\T1/ptm/m/n/10 . Oth-er-wise, i
t is
[3733]
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 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi
on. The survreg[] 
[3734] [3735] [3736]
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 []                 \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] 
[3737] [3738]
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 []                            \T1/pcr/m/n/9 temp/pi, -2 *x*temp, 2*temp^2*(4*x
^2*temp -1))[] 
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 []                 \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] 
[3739] [3740]
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 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100
0, data=test)[] 
[3741] [3742]
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 []\T1/pcr/m/n/9 # The first data set contains data on 312 subjects in a clinic
al trial plus[] 
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 []\T1/pcr/m/n/9 # 106 that agreed to be followed off protocol, the second data
 set has data[] 
[3743]
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 []               \T1/pcr/m/n/9 protime = tdc(day, protime), alk.phos = tdc(day
, alk.phos))[] 
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 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil
i), data=pbc2)[] 
[3744] [3745] [3746] [3747] [3748] [3749] [3750]
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 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l
inear",[] 
[3751] [3752] [3753]) [3754] (./fullrefman.ind [3755] [3756] [3757] [3758]
[3759] [3760] [3761] [3762] [3763] [3764] [3765] [3766] [3767] [3768] [3769]
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[3781]
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[3782]
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[]| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , 
[3783] [3784] [3785] [3786] [3787] [3788]
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[]| \T1/pcr/m/n/10 smooth.construct.sz.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.t2.smooth.spec\T1/ptm/m/n/10 , 
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[]| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , 
[3789]
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[]| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , 
[3790] [3791] [3792] [3793] [3794] [3795] [3796] [3797] [3798] [3799]
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[]\T1/pcr/m/n/10 [,Matrix,index,index,logical-method 
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[3801]
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[3806]
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[3809]
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[]\T1/pcr/m/n/10 Arith,triangularMatrix,diagonalMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dgRMatrix,matrix.csr-method 
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[]\T1/pcr/m/n/10 coerce,dgTMatrix,matrix.coo-method 
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[]\T1/pcr/m/n/10 coerce,diagonalMatrix,symmetricMatrix-method 
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[]\T1/pcr/m/n/10 coerce,dpoMatrix,corMatrix-method 
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[3821]
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[3822]
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[3823]
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[3824]
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[]\T1/pcr/m/n/10 Compare,CsparseMatrix,CsparseMatrix-method 
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[3825]
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[3826] [3827]
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[3828]
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[]\T1/pcr/m/n/10 qr.resid,sparseQR,dgeMatrix-method 
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(/builddir/build/BUILD/R-4.4.2/doc/manual/R-FAQ.toc) Chapter 1
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@textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https://  buildd
.  debian.  org/  build.  php?  &  pkg=r-base[][][]@textrm ),
[3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16]
[17] Chapter 4 [18] Chapter 5 [19] [20] [21] [22] [23] Chapter 6 [24] [25]
Chapter 7 [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37]
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[38] [39] [40] [41] Chapter 8 [42] Chapter 9 [43] [44] [45] Chapter 10 [46]
[47] )
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[20] Chapter 5 [21] Chapter 6 [22] [23] [24] [25]
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com/  ebiggers/  libdeflate[][][]@textrm ) is used by
[42] [43] [44] [45] [46] [47] [48] [49] [50] Appendix B [51] [52] [53] [54]
[55] Appendix C [56] [57] [58] [59] [60] [61]
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[1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14]
Chapter 3 [15] [16]
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[20] Chapter 5 [21] Chapter 6 [22] [23] [24] [25]
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[37] [38] [39]
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com/  ebiggers/  libdeflate[][][]@textrm ) is used by
[42] [43] [44] [45] [46] [47] [48] [49] [50] Appendix B [51] [52] [53] [54]
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[71] (Function and variable index) [72]
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[2] [3] [4] Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4
[13] [14] [15] [16] [17] [18] Chapter 5 [19] Chapter 6 [20] Chapter 7 [21]
[22] [23] [24] Chapter 8 [25] Chapter 9 [26] Appendix A [27]
(Function and variable index) [28]
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[13] [14] [15] [16] [17] [18] Chapter 5 [19] Chapter 6 [20] Chapter 7 [21]
[22] [23] [24] Chapter 8 [25] Chapter 9 [26] Appendix A [27]
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[]@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t
exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo
[]@textrm '[] and
[6] [7] [8] [9] [10] [11] [12] [13] [14]
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@texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_
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 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_
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@texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_
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 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_
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 @texttt ~/.R/Makevars.win64[]@textrm ,
[15] [16] [17] [18]
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 []                  @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec"
, "--no-test-load")[] 
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 []        @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL
, quiet = TRUE)[] 
[19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30]
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 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c
pp model/*/*.cpp model/*/*/*.cpp)[] 
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 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien
a07models.o $(SOURCES:.cpp=.o)[] 
[31] [32] [33] [34]
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[][][]@smallrm See [][]@smalltt https://  isocpp.  org/  std/  standing-documen
ts/  sd-6-sg10-feature-test-recommendations[][][] @smallrm or
[35]
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 []            @texttt CXX="$(CXX17) $(CXX17STD)" CXXFLAGS="$(CXX17FLAGS) $(CXX
17PICFLAGS)")[] 
[36] [37] [38]
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 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin
/cmake; fi[] 
[39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53]
[54] [55] [56]
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 []         @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB
ILITY)" \[] 
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 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX
PICFLAGS`[] 
[57] [58] [59] [60] [61] [62]
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 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v
ersion")[] 
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= "."))[] 
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 []  @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a
vailable")[] 
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version 52.0[] 
[63]
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 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b
e looked for
[64] [65] [66] [67] [68] [69] [70] [71]
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 []@texttt 'register' storage class specifier is deprecated and incompatible wi
th C++17[] 
[72]
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 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS:'kdenestmlcvb' :: kdene
stmlcvb[] 
[73]
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 []    @texttt error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj), (
double) nelem);[] 
[74] [75] [76] [77] [78] [79] [80]
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[]@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https://  R-Forge.  r-pro
ject.  org[]@textrm )[][]) and RForge
Chapter 2 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93]
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[]@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi
lename@texttt }[] @textrm and
[94] [95]
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[]@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu
-ally be used within the @textsl text[] @textrm part of
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 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt
 TRUE[] @textit and
[96] [97] [98] Chapter 3 [99] [100] [101] [102] [103] [104]
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 []@texttt 5497      1.9783  R                        findVarLocInFrame.part.0.
lto_priv.0[] 
[105] Chapter 4 [106] [107] [108] [109] [110]
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[]@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by
 e.g.
[111] [112] [113]
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@textrm See [][]@texttt https://  clang.  llvm.  org/  docs/  UsersManual.  htm
l#  controlling-code-generation[][][]@textrm ,
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  LightningTalks/ 
[114]
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odr_violation=0'[] 
[115]
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@texttt -fsanitize=undefined,address[] @textrm (where both are sup-ported, and 
we have seen
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xttt local-bounds[]@textrm , @texttt shift-base[] @textrm and
[116]
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o -fno-omit-frame-pointer -frtti[] 
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tandalone[] 
[117]
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pper bound of 0[] 
[118] [119] [120] [121] [122]
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on [-Wlto-type-mismatch][] 
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ration [-Wlto-type-mismatch][] 
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ation [-Wlto-type-mismatch][] 
[123]
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 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to 
INTEGER(4)[] 
Chapter 5 [124] [125] [126] [127] [128] [129] [130] [131] [132] [133]
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 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de
riv, PACKAGE = "splines")[] 
[134] [135]
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 []  @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n
a_omit_xts");[] 
[136] [137] [138] [139] [140]
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 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH)
" -lpackB[] 
[141] [142] [143] [144] [145] [146] [147] [148] [149] [150]
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[]@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated
3[] @textrm are fast ver-sions of R's
[151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162]
[163]
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NilValue);[] 
[164]
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 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE
_ANY} cetype_t;[] 
[165] Chapter 6 [166] [167] [168] [169] [170] [171] [172] [173] [174] [175]
[176] [177] [178] [179] [180] [181] [182] [183]
Warning: unbalanced parentheses in @def... [184] [185] [186] [187] [188]
[189]
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[]@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic
sEngine.h[]@textrm , @texttt R_
Chapter 7 [190] [191] Chapter 8 [192] [193] [194]
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tatic libR[] 
[195]
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nst char *);[] 
[196] [197] [198] [199] [200] [201]
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 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra-
tive in-stall and
[202] [203]
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 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R
-core\R32[] @textrm or
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(/builddir/build/BUILD/R-4.4.2/doc/manual/R-exts.toc)
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-exts.toc) (Acknowledgements)
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-exts.aux) Chapter 1 [1]
Writing index file R-exts.cp
[2] [3] [4] [5]
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[]@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t
exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo
[]@textrm '[] and
[6] [7] [8] [9] [10] [11] [12] [13] [14]
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@texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_
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[15] [16] [17] [18]
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 []                  @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec"
, "--no-test-load")[] 
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 []        @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL
, quiet = TRUE)[] 
[19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30]
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 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c
pp model/*/*.cpp model/*/*/*.cpp)[] 
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 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien
a07models.o $(SOURCES:.cpp=.o)[] 
[31] [32] [33] [34]
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[][][]@smallrm See [][]@smalltt https://  isocpp.  org/  std/  standing-documen
ts/  sd-6-sg10-feature-test-recommendations[][][] @smallrm or
[35]
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 []            @texttt CXX="$(CXX17) $(CXX17STD)" CXXFLAGS="$(CXX17FLAGS) $(CXX
17PICFLAGS)")[] 
[36] [37] [38]
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 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin
/cmake; fi[] 
[39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53]
[54] [55] [56]
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ILITY)" \[] 
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 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX
PICFLAGS`[] 
[57] [58] [59] [60] [61] [62]
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 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v
ersion")[] 
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 []  @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse 
= "."))[] 
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 []  @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a
vailable")[] 
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version 52.0[] 
[63]
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 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b
e looked for
[64] [65] [66] [67] [68] [69] [70] [71]
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 []@texttt 'register' storage class specifier is deprecated and incompatible wi
th C++17[] 
[72]
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 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS:'kdenestmlcvb' :: kdene
stmlcvb[] 
[73]
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 []    @texttt error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj), (
double) nelem);[] 
[74] [75] [76] [77] [78] [79] [80]
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[]@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https://  R-Forge.  r-pro
ject.  org[]@textrm )[][]) and RForge
Chapter 2 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93]
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[]@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi
lename@texttt }[] @textrm and
[94] [95]
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[]@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu
-ally be used within the @textsl text[] @textrm part of
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 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt
 TRUE[] @textit and
[96] [97] [98] Chapter 3 [99] [100] [101] [102] [103] [104]
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 []@texttt 5497      1.9783  R                        findVarLocInFrame.part.0.
lto_priv.0[] 
[105] Chapter 4 [106] [107] [108] [109] [110]
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[]@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by
 e.g.
[111] [112] [113]
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@textrm See [][]@texttt https://  clang.  llvm.  org/  docs/  UsersManual.  htm
l#  controlling-code-generation[][][]@textrm ,
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[][][]@smallrm see [][]@smalltt https://  llvm.  org/  devmtg/  2014-04/  PDFs/
  LightningTalks/ 
[114]
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odr_violation=0'[] 
[115]
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@texttt -fsanitize=undefined,address[] @textrm (where both are sup-ported, and 
we have seen
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@textrm (plus the more spe-cific ver-sions @texttt array-bounsds[]@textrm , @te
xttt local-bounds[]@textrm , @texttt shift-base[] @textrm and
[116]
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o -fno-omit-frame-pointer -frtti[] 
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tandalone[] 
[117]
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pper bound of 0[] 
[118] [119] [120] [121] [122]
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on [-Wlto-type-mismatch][] 
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ration [-Wlto-type-mismatch][] 
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ation [-Wlto-type-mismatch][] 
[123]
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 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to 
INTEGER(4)[] 
Chapter 5 [124] [125] [126] [127] [128] [129] [130] [131] [132] [133]
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 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de
riv, PACKAGE = "splines")[] 
[134] [135]
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a_omit_xts");[] 
[136] [137] [138] [139] [140]
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 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH)
" -lpackB[] 
[141] [142] [143] [144] [145] [146] [147] [148] [149] [150]
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[]@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated
3[] @textrm are fast ver-sions of R's
[151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162]
[163]
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 []    @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_
NilValue);[] 
[164]
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 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE
_ANY} cetype_t;[] 
[165] Chapter 6 [166] [167] [168] [169] [170] [171] [172] [173] [174] [175]
[176] [177] [178] [179] [180] [181] [182] [183]
Warning: unbalanced parentheses in @def... [184] [185] [186] [187] [188]
[189]
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[]@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic
sEngine.h[]@textrm , @texttt R_
Chapter 7 [190] [191] Chapter 8 [192] [193] [194]
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 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s
tatic libR[] 
[195]
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nst char *);[] 
[196] [197] [198] [199] [200] [201]
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 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra-
tive in-stall and
[202] [203]
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 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R
-core\R32[] @textrm or
(Function and variable index) [204]
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-exts.vrs [205] [206] [207] [208])
(Concept index) [209] (/builddir/build/BUILD/R-4.4.2/doc/manual/R-exts.cps
[210]) [211] )
(see the transcript file for additional information)</usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmb10.pfb></usr/share/texlive/texmf-dist/fon
ts/type1/public/amsfonts/cm/cmbx12.pfb></usr/share/texlive/texmf-dist/fonts/typ
e1/public/amsfonts/cm/cmex10.pfb></usr/share/texlive/texmf-dist/fonts/type1/pub
lic/amsfonts/cm/cmmi10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/am
sfonts/cm/cmmi12.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts
/cm/cmmi7.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmm
i9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr10.pfb>
</usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr7.pfb></usr/sh
are/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr8.pfb></usr/share/texl
ive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr9.pfb></usr/share/texlive/texm
f-dist/fonts/type1/public/amsfonts/cm/cmsl10.pfb></usr/share/texlive/texmf-dist
/fonts/type1/public/amsfonts/cm/cmsltt10.pfb></usr/share/texlive/texmf-dist/fon
ts/type1/public/amsfonts/cm/cmss10.pfb></usr/share/texlive/texmf-dist/fonts/typ
e1/public/amsfonts/cm/cmsy10.pfb></usr/share/texlive/texmf-dist/fonts/type1/pub
lic/amsfonts/cm/cmsy7.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/ams
fonts/cm/cmti10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/
cm/cmti9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmtt
10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmtt12.pfb
></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmtt9.pfb></usr/
share/texlive/texmf-dist/fonts/type1/public/amsfonts/latxfont/lcircle1.pfb>
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exmf-dist/fonts/map/pdftex/updmap/pdftex.map}] [2]
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(/builddir/build/BUILD/R-4.4.2/doc/manual/R-exts.toc)
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-exts.toc) (Acknowledgements)
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-exts.aux) Chapter 1 [1]
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[2] [3] [4] [5]
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[]@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t
exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo
[]@textrm '[] and
[6] [7] [8] [9] [10] [11] [12] [13] [14]
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@texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_
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[15] [16] [17] [18]
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, "--no-test-load")[] 
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 []        @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL
, quiet = TRUE)[] 
[19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30]
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 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c
pp model/*/*.cpp model/*/*/*.cpp)[] 
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 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien
a07models.o $(SOURCES:.cpp=.o)[] 
[31] [32] [33] [34]
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[][][]@smallrm See [][]@smalltt https://  isocpp.  org/  std/  standing-documen
ts/  sd-6-sg10-feature-test-recommendations[][][] @smallrm or
[35]
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17PICFLAGS)")[] 
[36] [37] [38]
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 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin
/cmake; fi[] 
[39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53]
[54] [55] [56]
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ILITY)" \[] 
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 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX
PICFLAGS`[] 
[57] [58] [59] [60] [61] [62]
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 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v
ersion")[] 
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 []  @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse 
= "."))[] 
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 []  @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a
vailable")[] 
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version 52.0[] 
[63]
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 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b
e looked for
[64] [65] [66] [67] [68] [69] [70] [71]
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 []@texttt 'register' storage class specifier is deprecated and incompatible wi
th C++17[] 
[72]
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 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS:'kdenestmlcvb' :: kdene
stmlcvb[] 
[73]
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 []    @texttt error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj), (
double) nelem);[] 
[74] [75] [76] [77] [78] [79] [80]
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[]@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https://  R-Forge.  r-pro
ject.  org[]@textrm )[][]) and RForge
Chapter 2 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93]
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[]@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi
lename@texttt }[] @textrm and
[94] [95]
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[]@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu
-ally be used within the @textsl text[] @textrm part of
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 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt
 TRUE[] @textit and
[96] [97] [98] Chapter 3 [99] [100] [101] [102] [103] [104]
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 []@texttt 5497      1.9783  R                        findVarLocInFrame.part.0.
lto_priv.0[] 
[105] Chapter 4 [106] [107] [108] [109] [110]
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[]@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by
 e.g.
[111] [112] [113]
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@textrm See [][]@texttt https://  clang.  llvm.  org/  docs/  UsersManual.  htm
l#  controlling-code-generation[][][]@textrm ,
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[][][]@smallrm see [][]@smalltt https://  llvm.  org/  devmtg/  2014-04/  PDFs/
  LightningTalks/ 
[114]
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[115]
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tandalone[] 
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Chapter 5 [124] [125] [126] [127] [128] [129] [130] [131] [132] [133]
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[136] [137] [138] [139] [140]
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" -lpackB[] 
[141] [142] [143] [144] [145] [146] [147] [148] [149] [150]
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[]@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated
3[] @textrm are fast ver-sions of R's
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[163]
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[165] Chapter 6 [166] [167] [168] [169] [170] [171] [172] [173] [174] [175]
[176] [177] [178] [179] [180] [181] [182] [183]
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[189]
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[]@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic
sEngine.h[]@textrm , @texttt R_
Chapter 7 [190] [191] Chapter 8 [192] [193] [194]
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[196] [197] [198] [199] [200] [201]
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[202] [203]
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(Function and variable index) [204]
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[14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24]
Chapter 6 [25] [26] [27] [28] Chapter 7 [29] [30] [31] Chapter 8 [32] [33] </bu
ilddir/build/BUILD/R-4.4.2/doc/manual/images/hist.pdf> [34] </builddir/build/BU
ILD/R-4.4.2/doc/manual/images/ecdf.pdf> </builddir/build/BUILD/R-4.4.2/doc/manu
al/images/QQ.pdf> [35] [36] </builddir/build/BUILD/R-4.4.2/doc/manual/images/ic
e.pdf> [37] [38] Chapter 9 [39] [40] Chapter 10 [41] [42] [43] [44] [45]
[46] [47] [48] [49] Chapter 11 [50] [51] [52] [53] [54] [55] [56] [57] [58]
[59] [60] [61] Chapter 12 [62] [63] [64] [65] [66] [67] [68] [69] [70] </buildd
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[77] Chapter 14 [78] [79]
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[80] Appendix A [81] [82] [83] Appendix B [84] [85] [86] [87] [88] [89]
[90] Appendix C [91] [92] Appendix D [93]
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(/builddir/build/BUILD/R-4.4.2/doc/manual/R-intro.toc) (Preface)
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[2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13]
[14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24]
Chapter 6 [25] [26] [27] [28] Chapter 7 [29] [30] [31] Chapter 8 [32] [33] </bu
ilddir/build/BUILD/R-4.4.2/doc/manual/images/hist.pdf> [34] </builddir/build/BU
ILD/R-4.4.2/doc/manual/images/ecdf.pdf> </builddir/build/BUILD/R-4.4.2/doc/manu
al/images/QQ.pdf> [35] [36] </builddir/build/BUILD/R-4.4.2/doc/manual/images/ic
e.pdf> [37] [38] Chapter 9 [39] [40] Chapter 10 [41] [42] [43] [44] [45]
[46] [47] [48] [49] Chapter 11 [50] [51] [52] [53] [54] [55] [56] [57] [58]
[59] [60] [61] Chapter 12 [62] [63] [64] [65] [66] [67] [68] [69] [70] </buildd
ir/build/BUILD/R-4.4.2/doc/manual/images/fig11.pdf> [71] </builddir/build/BUILD
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[77] Chapter 14 [78] [79]
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[80] Appendix A [81] [82] [83] Appendix B [84] [85] [86] [87] [88] [89]
[90] Appendix C [91] [92] Appendix D [93]
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[96] (/builddir/build/BUILD/R-4.4.2/doc/manual/R-intro.cps [97]) Appendix F
[98] [99] )
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(/builddir/build/BUILD/R-4.4.2/doc/manual/R-intro.toc) (Preface)
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-intro.aux) Chapter 1 [1]
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[2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13]
[14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24]
Chapter 6 [25] [26] [27] [28] Chapter 7 [29] [30] [31] Chapter 8 [32] [33] </bu
ilddir/build/BUILD/R-4.4.2/doc/manual/images/hist.pdf> [34] </builddir/build/BU
ILD/R-4.4.2/doc/manual/images/ecdf.pdf> </builddir/build/BUILD/R-4.4.2/doc/manu
al/images/QQ.pdf> [35] [36] </builddir/build/BUILD/R-4.4.2/doc/manual/images/ic
e.pdf> [37] [38] Chapter 9 [39] [40] Chapter 10 [41] [42] [43] [44] [45]
[46] [47] [48] [49] Chapter 11 [50] [51] [52] [53] [54] [55] [56] [57] [58]
[59] [60] [61] Chapter 12 [62] [63] [64] [65] [66] [67] [68] [69] [70] </buildd
ir/build/BUILD/R-4.4.2/doc/manual/images/fig11.pdf> [71] </builddir/build/BUILD
/R-4.4.2/doc/manual/images/fig12.pdf> [72] [73] [74] [75] Chapter 13 [76]
[77] Chapter 14 [78] [79]
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[80] Appendix A [81] [82] [83] Appendix B [84] [85] [86] [87] [88] [89]
[90] Appendix C [91] [92] Appendix D [93]
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-intro.vrs [94] [95]) Appendix E
[96] (/builddir/build/BUILD/R-4.4.2/doc/manual/R-intro.cps [97]) Appendix F
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[1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16]
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 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix
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[17] [18] [19] [20] [21] Chapter 2 [22] [23] [24] [25] [26] Chapter 3 [27]
[28] Chapter 4 [29] [30] Chapter 5 [31] Chapter 6 [32] [33] [34] [35] [36]
[37] [38] [39] [40] [41] [42] [43] Chapter 7 [44]
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@textrm ing been built and in-stalled as a Mac macOS `frame-work'. Specif-i-cal
ly,
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@textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a 
sym-bolic link, as
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@textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re-
solves to
[45] Chapter 8 [46] [47]
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 @textrm the reg-is-tra-tion in-for-ma-tion (num-ber of ar-gu-ments, cor-rect c
hoice of
[48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] Chapter 9 [59] [60]
Chapter 10 [61] Chapter 11 [62] Chapter 12 [63] [64]
(Function and variable index) [65]
No file R-ints.vrs.
(Concept index) [66]
No file R-ints.cps.
[67] )
(see the transcript file for additional information)</usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmb10.pfb></usr/share/texlive/texmf-dist/fon
ts/type1/public/amsfonts/cm/cmbx12.pfb></usr/share/texlive/texmf-dist/fonts/typ
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[1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16]
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 [] @texttt length(nM <- asNamespace("Matrix") )                    # 941 for M
atrix 1.2-6[] 
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 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener
ics with methods[] 
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 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' 
(group)generic[] 
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 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix
" "ANY#ldiMatrix" "ANY#Matrix"[] 
[17] [18] [19] [20] [21] Chapter 2 [22] [23] [24] [25] [26] Chapter 3 [27]
[28] Chapter 4 [29] [30] Chapter 5 [31] Chapter 6 [32] [33] [34] [35] [36]
[37] [38] [39] [40] [41] [42] [43] Chapter 7 [44]
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@textrm ing been built and in-stalled as a Mac macOS `frame-work'. Specif-i-cal
ly,
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@textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a 
sym-bolic link, as
Underfull \hbox (badness 10000) in paragraph at lines 3791--3800
@textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re-
solves to
[45] Chapter 8 [46] [47]
Underfull \hbox (badness 10000) in paragraph at lines 4012--4017
 @textrm the reg-is-tra-tion in-for-ma-tion (num-ber of ar-gu-ments, cor-rect c
hoice of
[48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] Chapter 9 [59] [60]
Chapter 10 [61] Chapter 11 [62] Chapter 12 [63] [64]
(Function and variable index) [65]
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-ints.vrs [66]) (Concept index)
[67] (/builddir/build/BUILD/R-4.4.2/doc/manual/R-ints.cps) [68] )
(see the transcript file for additional information)</usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmb10.pfb></usr/share/texlive/texmf-dist/fon
ts/type1/public/amsfonts/cm/cmbx12.pfb></usr/share/texlive/texmf-dist/fonts/typ
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cm/cmr10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr7
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[1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16]
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 [] @texttt length(nM <- asNamespace("Matrix") )                    # 941 for M
atrix 1.2-6[] 
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 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener
ics with methods[] 
Overfull \hbox (45.05586pt too wide) in paragraph at lines 1500--1500
 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' 
(group)generic[] 
Overfull \hbox (137.03487pt too wide) in paragraph at lines 1501--1501
 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix
" "ANY#ldiMatrix" "ANY#Matrix"[] 
[17] [18] [19] [20] [21] Chapter 2 [22] [23] [24] [25] [26] Chapter 3 [27]
[28] Chapter 4 [29] [30] Chapter 5 [31] Chapter 6 [32] [33] [34] [35] [36]
[37] [38] [39] [40] [41] [42] [43] Chapter 7 [44]
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@textrm ing been built and in-stalled as a Mac macOS `frame-work'. Specif-i-cal
ly,
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@textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a 
sym-bolic link, as
Underfull \hbox (badness 10000) in paragraph at lines 3791--3800
@textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re-
solves to
[45] Chapter 8 [46] [47]
Underfull \hbox (badness 10000) in paragraph at lines 4012--4017
 @textrm the reg-is-tra-tion in-for-ma-tion (num-ber of ar-gu-ments, cor-rect c
hoice of
[48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] Chapter 9 [59] [60]
Chapter 10 [61] Chapter 11 [62] Chapter 12 [63] [64]
(Function and variable index) [65]
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-ints.vrs [66]) (Concept index)
[67] (/builddir/build/BUILD/R-4.4.2/doc/manual/R-ints.cps) [68] )
(see the transcript file for additional information)</usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmb10.pfb></usr/share/texlive/texmf-dist/fon
ts/type1/public/amsfonts/cm/cmbx12.pfb></usr/share/texlive/texmf-dist/fonts/typ
e1/public/amsfonts/cm/cmmi10.pfb></usr/share/texlive/texmf-dist/fonts/type1/pub
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cm/cmr10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr7
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exmf-dist/fonts/type1/public/amsfonts/cm/cmsy10.pfb></usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmti10.pfb></usr/share/texlive/texmf-dist/fo
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[3] [4] [5] [6] [7] Chapter 3 [8] [9] [10] [11] [12] [13] [14] [15] [16]
[17] [18] [19] [20] Chapter 4 [21] [22] [23] [24] Chapter 5 [25] [26] [27]
[28] [29] [30] Chapter 6 [31] [32] [33] [34] [35] [36] [37] [38] Chapter 7
[39] Chapter 8 [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45]
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[]@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be
 found by
[46] [47] [48] [49] [50] (Function and Variable Index) [51]
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(Concept Index) [52]
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Appendix A [53] [54] )
(see the transcript file for additional information)</usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmb10.pfb></usr/share/texlive/texmf-dist/fon
ts/type1/public/amsfonts/cm/cmbx12.pfb></usr/share/texlive/texmf-dist/fonts/typ
e1/public/amsfonts/cm/cmmi10.pfb></usr/share/texlive/texmf-dist/fonts/type1/pub
lic/amsfonts/cm/cmr10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/ams
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pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsltt10.pfb>
</usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy10.pfb></usr/
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[3] [4] [5] [6] [7] Chapter 3 [8] [9] [10] [11] [12] [13] [14] [15] [16]
[17] [18] [19] [20] Chapter 4 [21] [22] [23] [24] Chapter 5 [25] [26] [27]
[28] [29] [30] Chapter 6 [31] [32] [33] [34] [35] [36] [37] [38] Chapter 7
[39] Chapter 8 [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45]
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[]@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be
 found by
[46] [47] [48] [49] [50] (Function and Variable Index) [51]
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.vrs [52]) (Concept Index)
[53] (/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.cps) Appendix A [54]
[55] )
(see the transcript file for additional information)</usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmb10.pfb></usr/share/texlive/texmf-dist/fon
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e1/public/amsfonts/cm/cmmi10.pfb></usr/share/texlive/texmf-dist/fonts/type1/pub
lic/amsfonts/cm/cmmi12.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/am
sfonts/cm/cmmi9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/
cm/cmr10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr7
.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr9.pfb></u
sr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsl10.pfb></usr/sha
re/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsltt10.pfb></usr/share/t
exlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy10.pfb></usr/share/texlive
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onts/type1/public/amsfonts/cm/cmtt10.pfb></usr/share/texlive/texmf-dist/fonts/t
ype1/public/amsfonts/cm/cmtt12.pfb></usr/share/texlive/texmf-dist/fonts/type1/p
ublic/amsfonts/cm/cmtt9.pfb>
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This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex)
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entering extended mode
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi
(/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex
Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs,
page headings, tables, conditionals, indexing, sectioning, toc, environments,
defuns, macros, cross references, insertions,
(/builddir/build/BUILD/R-4.4.2/doc/manual/epsf.tex
This is `epsf.tex' v2.7.4 <14 February 2011>
) localization, formatting, and turning on texinfo input format.)
Writing index file R-lang.vr
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-defs.texi
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(/builddir/build/BUILD/R-4.4.2/doc/manual/version.texi) [1{/usr/share/texlive/t
exmf-dist/fonts/map/pdftex/updmap/pdftex.map}] [2]
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.toc [-1] [-2]) [-3]
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.toc)
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.toc) Chapter 1
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.aux)
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Chapter 2 [1] [2]
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 @textbf storage.mode| 
[3] [4] [5] [6] [7] Chapter 3 [8] [9] [10] [11] [12] [13] [14] [15] [16]
[17] [18] [19] [20] Chapter 4 [21] [22] [23] [24] Chapter 5 [25] [26] [27]
[28] [29] [30] Chapter 6 [31] [32] [33] [34] [35] [36] [37] [38] Chapter 7
[39] Chapter 8 [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45]
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[]@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be
 found by
[46] [47] [48] [49] [50] (Function and Variable Index) [51]
(/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.vrs [52]) (Concept Index)
[53] (/builddir/build/BUILD/R-4.4.2/doc/manual/R-lang.cps) Appendix A [54]
[55] )
(see the transcript file for additional information)</usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmb10.pfb></usr/share/texlive/texmf-dist/fon
ts/type1/public/amsfonts/cm/cmbx12.pfb></usr/share/texlive/texmf-dist/fonts/typ
e1/public/amsfonts/cm/cmmi10.pfb></usr/share/texlive/texmf-dist/fonts/type1/pub
lic/amsfonts/cm/cmmi12.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/am
sfonts/cm/cmmi9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/
cm/cmr10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr7
.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr9.pfb></u
sr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsl10.pfb></usr/sha
re/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsltt10.pfb></usr/share/t
exlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy10.pfb></usr/share/texlive
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-dist/fonts/type1/public/amsfonts/cm/cmti9.pfb></usr/share/texlive/texmf-dist/f
onts/type1/public/amsfonts/cm/cmtt10.pfb></usr/share/texlive/texmf-dist/fonts/t
ype1/public/amsfonts/cm/cmtt12.pfb></usr/share/texlive/texmf-dist/fonts/type1/p
ublic/amsfonts/cm/cmtt9.pfb>
Output written on R-lang.pdf (60 pages, 392427 bytes).
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make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/doc/manual'
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+ make compact-pdf
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compacting PDF manuals in doc/manual
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+ make info
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/usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-FAQ.texi
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+ for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1
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+ for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1
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+ mv doc/manual/R-FAQ.info.utf8 doc/manual/R-FAQ.info
+ for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1
+ iconv -f iso-8859-1 -t utf-8 -o doc/FAQ.utf8 doc/FAQ
+ mv doc/FAQ.utf8 doc/FAQ
+ for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1
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+ mv doc/manual/R-admin.info.utf8 doc/manual/R-admin.info
+ for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1
+ iconv -f iso-8859-1 -t utf-8 -o doc/manual/R-exts.info-1.utf8 doc/manual/R-exts.info-1
+ mv doc/manual/R-exts.info-1.utf8 doc/manual/R-exts.info-1
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.8CV9a4
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64
++ dirname /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64
+ cd R-4.4.2
+ make DESTDIR=/builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64 install install-pdf install-info
mkdir -p -- /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R
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installing doc ...
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mkdir -p -- /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/R/licenses
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make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/unix'
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -DR_HOME='"/usr/lib64/R"' \
  -o Rscript ./Rscript.c
mkdir -p -- /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/pkgconfig
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make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/main'
mkdir -p -- /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/exec
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mkdir -p -- /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/lib
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mkdir -p -- /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/modules
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make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/library'
mkdir -p -- /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library
installing packages ...
  building HTML index ...
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installing R manuals in PDF format ...
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make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/doc/manual'
mkdir -p -- /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/info
/usr/bin/install -c -m 644 "./dir" "/builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/info"
installing R info pages ...
updating '/usr/share/info/dir' ...
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/doc/manual'
+ rm -f /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/info/dir
+ mkdir -p /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/doc/R
+ install -p CAPABILITIES /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/doc/R
+ cd src/nmath/standalone
+ make install DESTDIR=/builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/src/include'
make[1]: 'Rmath.h' is up to date.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/src/include'
+ mkdir -p /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/etc/ld.so.conf.d
+ echo /usr/lib64/R/lib
+ mkdir -p /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/R/library
+ touch -r README /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/doc/R/CAPABILITIES
+ touch -r README doc/manual/R-FAQ.pdf doc/manual/R-admin.pdf doc/manual/R-data.pdf doc/manual/R-exts.pdf doc/manual/R-intro.pdf doc/manual/R-ints.pdf doc/manual/R-lang.pdf doc/manual/fullrefman.pdf
+ touch -r README /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/bin/R
+ sed -i 's|\..\/\..|/usr/lib64/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/doc/R/html/packages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/html/bkde.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/html/bkde2D.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/html/bkfe.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/html/dpih.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/html/dpik.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/html/dpill.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/html/locpoly.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Aids2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Animals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Boston.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Cars93.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Cushings.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/DDT.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/GAGurine.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Insurance.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/MASS-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Melanoma.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Null.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/OME.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Pima.tr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Rabbit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Rubber.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/SP500.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Sitka.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Sitka89.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Skye.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/Traffic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/UScereal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/UScrime.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/VA.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/abbey.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/accdeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/addterm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/anorexia.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/anova.negbin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/area.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/bacteria.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/bandwidth.nrd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/bcv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/beav1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/beav2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/biopsy.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/birthwt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/boxcox.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/cabbages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/caith.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/cats.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/cement.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/chem.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/con2tr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/confint.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/contr.sdif.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/coop.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/corresp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/cov.rob.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/cov.trob.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/cpus.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/crabs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/deaths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/denumerate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/dose.p.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/drivers.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/dropterm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/eagles.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/epil.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/eqscplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/farms.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/fgl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/fitdistr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/forbes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/fractions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/galaxies.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/gamma.dispersion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/gamma.shape.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/gehan.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/genotype.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/geyser.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/gilgais.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/ginv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/glm.convert.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/glm.nb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/glmmPQL.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/hills.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/hist.scott.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/housing.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/huber.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/hubers.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/immer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/isoMDS.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/kde2d.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/lda.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/ldahist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/leuk.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/lm.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/lm.ridge.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/loglm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/loglm1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/logtrans.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/lqs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/mammals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/mca.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/mcycle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/menarche.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/michelson.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/minn38.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/motors.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/muscle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/mvrnorm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/negative.binomial.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/newcomb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/nlschools.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/npk.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/npr1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/oats.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/painters.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/pairs.lda.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/parcoord.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/petrol.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/phones.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/plot.lda.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/plot.mca.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/polr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/predict.glmmPQL.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/predict.lda.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/predict.lqs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/predict.mca.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/predict.qda.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/profile.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/qda.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/quine.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/rational.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/renumerate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/rlm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/rms.curv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/rnegbin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/road.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/rotifer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/sammon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/ships.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/shoes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/shrimp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/shuttle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/snails.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/stdres.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/steam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/stepAIC.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/stormer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/studres.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/summary.loglm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/summary.negbin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/summary.rlm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/survey.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/synth.tr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/theta.md.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/topo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/truehist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/ucv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/waders.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/whiteside.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/width.SJ.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/write.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/html/wtloss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/BunchKaufman-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/BunchKaufman-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/CAex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/CHMfactor-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Cholesky-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Cholesky-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/CsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Diagonal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Hilbert.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/KNex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/KhatriRao.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Matrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Matrix-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Matrix-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Matrix-notyet.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/MatrixClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/MatrixFactorization-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/RsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Schur-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/Schur-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/TsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/USCounties.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/abIndex-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/abIseq.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/all.equal-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/asUniqueT.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/band-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/bandSparse.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/bdiag.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/boolmatmult-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/cbind2-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/chol-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/chol2inv-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/coerce-methods-SparseM.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/coerce-methods-graph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/colSums-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/condest.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/ddenseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/ddiMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/denseLU-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/denseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dgCMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dgRMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dgTMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dgeMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/diagU2N.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/diagonalMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dimScale.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dmperm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dpoMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/drop0.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dsCMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dsRMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dsyMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dtCMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dtRMatrix-class-sparse.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dtpMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/dtrMatrix-class-dense.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/expand-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/expm-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/externalFormats.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/facmul-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/fastMisc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/forceSymmetric-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/formatSparseM.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/generalMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/image-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/indMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/index-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/invertPerm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/is.na-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/is.null.DN.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/isSymmetric-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/isTriangular-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/kronecker-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/ldenseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/ldiMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/lgeMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/lsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/lsyMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/ltrMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/lu-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/mat2triplet.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/matmult-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/nMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/ndenseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/nearPD.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/ngeMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/nnzero-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/norm-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/nsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/nsyMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/ntrMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/pMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/pack-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/packedMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/printSpMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/qr-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/rankMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/rcond-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/rep2abI.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/rleDiff-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/rsparsematrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/solve-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/spMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/sparse.model.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/sparseLU-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/sparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/sparseMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/sparseQR-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/sparseVector-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/sparseVector.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/subassign-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/subscript-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/symmetricMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/symmpart-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/triangularMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/unpackedMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/updown-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/Matrix/html/wrld_1deg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Arithmetic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/AsIs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Bessel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/CallExternal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Colon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Comparison.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Constants.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Cstack_info.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/DateTimeClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Dates.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
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+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/EnvVar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Extract.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Extract.factor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Extract.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Extremes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Foreign-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Foreign.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Hyperbolic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ISOdatetime.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/InternalMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/La_library.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/La_version.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Last.value.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Log.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Logic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/LongVectors.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/MathFun.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Memory-limits.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Memory.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/NA.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/NULL.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/NumericConstants.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Ops.Date.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Paren.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Platform.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Primitive.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Quotes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Random-user.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Random.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/RdUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Recall.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Reserved.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Rhome.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Round.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/S3method.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Signals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Special.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/StackOverflows.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Startup.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Syntax.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.getenv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.getpid.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.glob.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.info.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.localeconv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.readlink.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.setFileTime.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.setenv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.sleep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.time.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Sys.which.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Tailcall.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Trig.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/UTF8filepaths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/UseMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Vectorize.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/Version.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/abbreviate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/agrep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/all.equal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/all.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/allnames.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/any.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/aperm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/append.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/apply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/args.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/array.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/array2DF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/as.Date.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/as.POSIXlt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/as.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/as.environment.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/as.function.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/asplit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/assign.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/assignOps.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/attach.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/attr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/attributes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/autoload.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/backsolve.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/balancePOSIXlt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/base-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/base-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/base-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/base-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/basename.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/bincode.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/bindenv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/bitwise.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/body.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/bquote.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/browser.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/browserText.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/builtins.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/by.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/c.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/call.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/callCC.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/capabilities.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/cat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/cbind.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/char.expand.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/character.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/charmatch.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/chartr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/chkDots.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/chol.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/chol2inv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/chooseOpsMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/col.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/colSums.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/colnames.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/commandArgs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/comment.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/complex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/conditions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/conflicts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/connections.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/contributors.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/copyright.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/crossprod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/cumsum.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/curlGetHeaders.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/cut.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/cut.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/data.class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/data.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dataframeHelpers.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/date.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dcf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/debug.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/declare.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/delayedAssign.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/deparse.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/deparseOpts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/det.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/detach.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dev.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/diag.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/diff.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/difftime.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dim.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dimnames.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/do.call.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dontCheck.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dots.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/double.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dput.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/drop.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/droplevels.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dump.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/duplicated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/dynload.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/eapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/eigen.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/encodeString.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/environment.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/eval.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/exists.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/expand.grid.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/expression.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/extSoftVersion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/factor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/file.access.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/file.choose.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/file.info.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/file.path.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/file.show.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/files.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/files2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/find.package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/findInterval.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/force.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/forceAndCall.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/formals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/format.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/format.info.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/format.pval.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/formatDL.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/formatc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/function.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/funprog.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/gc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/gc.time.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/gctorture.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/get.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/getCallingDLL.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/getDLLRegisteredRoutines.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/getLoadedDLLs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/getNativeSymbolInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/gettext.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/getwd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/gl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/grep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/grepRaw.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/groupGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/grouping.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/gzcon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/hexmode.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/iconv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/icuSetCollate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/identical.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/identity.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ifelse.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/integer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/interaction.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/interactive.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/invisible.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/is.finite.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/is.function.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/is.language.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/is.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/is.recursive.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/is.single.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/is.unsorted.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/isS4.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/isSymmetric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/jitter.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/kappa.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/kronecker.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/l10n_info.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/labels.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/lapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/lazyload.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/length.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/lengths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/levels.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/libPaths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/libcurlVersion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/library.dynam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/library.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/license.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/list.files.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/list.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/list2DF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/list2env.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/load.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/locales.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/logical.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/lower.tri.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/make.names.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/make.unique.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/mapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/marginSums.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/mat.or.vec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/match.arg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/match.call.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/match.fun.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/match.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/matmult.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/maxCol.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/mean.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/memCompress.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/memlimits.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/memory.profile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/merge.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/message.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/missing.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/mode.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/mtfrm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/name.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/names.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/nargs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/nchar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/nlevels.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/noquote.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/norm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/normalizePath.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/notyet.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/nrow.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ns-dblcolon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ns-hooks.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ns-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ns-load.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ns-reflect.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/ns-topenv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/numeric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/numeric_version.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/octmode.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/on.exit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/options.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/order.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/outer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/parse.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/paste.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/path.expand.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/pcre_config.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/pipeOp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/plot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/pmatch.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/polyroot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/pos.to.env.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/pretty.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/print.dataframe.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/print.default.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/print.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/prmatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/proc.time.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/prod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/proportions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/pushBack.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/qr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/qraux.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/quit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/range.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rank.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/raw.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rawConnection.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rawConversion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/readBin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/readChar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/readLines.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/readRDS.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/readRenviron.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/readline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/reg.finalizer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/regex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/regmatches.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/replace.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rev.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/round.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/row.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/row.names.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/rowsum.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sQuote.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sample.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/save.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/scale.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/scan.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/search.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/seek.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/seq.Date.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/seq.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/seq.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sequence.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/serialize.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/setTimeLimit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sets.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/shQuote.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/showConnections.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sign.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sink.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/slice.index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/slotOp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/socketSelect.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/solve.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sort.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sort_by.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/source.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/split.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sprintf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/srcfile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/standardGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/startsWith.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/stop.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/stopifnot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/strptime.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/strrep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/strsplit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/strtoi.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/strtrim.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/structure.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/strwrap.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/subset.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/substitute.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/substr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sum.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/summary.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/svd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sweep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/switch.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sys.parent.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/sys.source.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/system.file.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/system.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/system.time.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/system2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/t.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/table.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/tabulate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/tapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/taskCallback.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/taskCallbackManager.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/taskCallbackNames.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/tempfile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/textconnections.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/tilde.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/timezones.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/toString.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/trace.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/traceback.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/tracemem.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/transform.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/trimws.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/try.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/typeof.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/unique.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/units.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/unlink.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/unlist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/unname.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/use.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/userhooks.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/utf8Conversion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/validUTF8.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/vector.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/warning.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/warnings.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/weekday.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/which.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/which.min.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/with.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/withVisible.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/write.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/writeLines.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/xtfrm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/zMachine.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/zScript.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/zapsmall.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/zpackages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/base/html/zutils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/EEF.profile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/Imp.Estimates.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/abc.ci.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/acme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/aids.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/aircondit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/amis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/aml.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/beaver.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/bigcity.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/boot-practicals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/boot.array.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/boot.ci.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/boot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/brambles.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/breslow.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/calcium.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/cane.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/capability.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/catsM.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/cav.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/cd4.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/cd4.nested.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/censboot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/channing.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/claridge.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/cloth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/co.transfer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/coal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/corr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/cum3.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/cv.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/darwin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/dogs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/downs.bc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/ducks.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/empinf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/envelope.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/exp.tilt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/fir.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/freq.array.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/frets.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/glm.diag.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/glm.diag.plots.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/gravity.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/hirose.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/imp.weights.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/inv.logit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/islay.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/jack.after.boot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/k3.linear.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/linear.approx.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/lines.saddle.distn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/logit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/manaus.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/melanoma.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/motor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/neuro.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/nitrofen.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/nodal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/norm.ci.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/nuclear.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/paulsen.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/plot.boot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/poisons.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/polar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/print.boot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/print.bootci.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/print.saddle.distn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/print.simplex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/remission.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/saddle.distn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/saddle.distn.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/saddle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/salinity.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/simplex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/simplex.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/smooth.f.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/sunspot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/survival.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/tau.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/tilt.boot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/tsboot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/tuna.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/urine.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/var.linear.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/boot/html/wool.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/SOM.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/batchSOM.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/condense.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/knn.cv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/knn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/knn1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/lvq1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/lvq2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/lvq3.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/lvqinit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/lvqtest.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/multiedit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/olvq1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/reduce.nn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/class/html/somgrid.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/agnes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/agnes.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/agriculture.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/animals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/bannerplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/chorSub.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/clara.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/clara.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/clusGap.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/clusplot.default.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/clusplot.partition.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/cluster-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/coef.hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/daisy.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/diana.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/dissimilarity.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/ellipsoidhull.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/fanny.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/fanny.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/flower.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/lower.to.upper.tri.inds.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/medoids.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/mona.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/mona.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/pam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/pam.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/partition.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/plantTraits.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/plot.agnes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/plot.diana.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/plot.mona.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/plot.partition.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/pltree.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/pluton.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/predict.ellipsoid.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/print.agnes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/print.clara.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/print.diana.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/print.dissimilarity.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/print.fanny.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/print.mona.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/print.pam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/ruspini.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/silhouette.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/sizeDiss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/summary.agnes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/summary.clara.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/summary.diana.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/summary.mona.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/summary.pam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/twins.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/volume.ellipsoid.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/votes.repub.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/cluster/html/xclara.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/codetools/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/codetools/html/checkUsage.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/codetools/html/codetools.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/codetools/html/findGlobals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/codetools/html/showTree.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/compiler/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/compiler/html/compile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/AirPassengers.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/BJsales.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/BOD.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/ChickWeight.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/DNase.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/EuStockMarkets.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Formaldehyde.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/HairEyeColor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Harman23.cor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Harman74.cor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Indometh.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/InsectSprays.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/JohnsonJohnson.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/LakeHuron.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/LifeCycleSavings.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Loblolly.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Nile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Orange.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/OrchardSprays.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/PlantGrowth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Puromycin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Theoph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/Titanic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/ToothGrowth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/UCBAdmissions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/UKDriverDeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/UKLungDeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/UKgas.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/USAccDeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/USArrests.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/USJudgeRatings.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/USPersonalExpenditure.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/VADeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/WWWusage.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/WorldPhones.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/ability.cov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/airmiles.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/airquality.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/anscombe.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/attenu.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/attitude.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/austres.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/beavers.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/cars.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/chickwts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/co2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/crimtab.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/datasets-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/discoveries.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/esoph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/euro.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/eurodist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/faithful.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/freeny.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/infert.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/iris.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/islands.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/lh.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/longley.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/lynx.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/morley.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/mtcars.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/nhtemp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/nottem.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/npk.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/occupationalStatus.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/precip.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/presidents.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/pressure.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/quakes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/randu.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/rivers.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/rock.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/sleep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/stackloss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/state.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/sunspot.month.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/sunspot.year.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/sunspots.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/swiss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/treering.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/trees.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/uspop.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/volcano.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/warpbreaks.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/women.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/datasets/html/zCO2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/lookup.xport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.S.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.arff.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.dbf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.dta.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.epiinfo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.mtp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.octave.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.spss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.ssd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.systat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/read.xport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/write.arff.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/write.dbf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/write.dta.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/foreign/html/write.foreign.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/Devices.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/Hershey.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/Japanese.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/Type1Font.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/adjustcolor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/as.graphicsAnnot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/as.raster.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/axisTicks.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/boxplot.stats.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/bringToTop.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/cairo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/cairoSymbolFont.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/check.options.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/chull.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/cm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/col2rgb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/colorRamp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/colors.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/contourLines.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/convertColor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/densCols.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/dev.capabilities.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/dev.capture.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/dev.flush.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/dev.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/dev.interactive.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/dev.size.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/dev2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/dev2bitmap.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/devAskNewPage.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/embedFonts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/extendrange.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/getGraphicsEvent.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/glyphInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/grDevices-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/grDevices-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/grSoftVersion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/gray.colors.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/gray.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/hcl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/hsv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/make.rgb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/msgWindow.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/n2mfrow.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/nclass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/palette.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/palettes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/pdf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/pdf.options.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/pictex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/plotmath.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/png.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/postscript.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/postscriptFonts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/pretty.Date.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/ps.options.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/quartz.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/quartzFonts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/recordGraphics.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/recordplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/rgb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/rgb2hsv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/savePlot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/trans3d.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/windows.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/windows.options.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/windowsFonts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/x11.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/x11Fonts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/xfig.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/xy.coords.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/xyTable.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grDevices/html/xyz.coords.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/abline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/arrows.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/assocplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/axTicks.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/axis.POSIXct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/axis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/barplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/box.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/boxplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/boxplot.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/bxp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/cdplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/clip.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/contour.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/convertXY.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/coplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/curve.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/dotchart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/filled.contour.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/fourfoldplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/graphics-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/graphics-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/grid.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/hist.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/hist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/identify.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/image.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/layout.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/legend.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/lines.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/locator.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/matplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/mosaicplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/mtext.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/pairs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/panel.smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/par.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/persp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/pie.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.dataframe.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.default.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.design.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.factor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.raster.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.table.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.window.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plot.xy.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/plothistogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/points.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/polygon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/polypath.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/rasterImage.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/rect.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/rug.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/screen.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/segments.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/smoothScatter.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/spineplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/stars.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/stem.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/stripchart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/strwidth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/sunflowerplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/symbols.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/text.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/title.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/units.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/xspline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/graphics/html/zAxis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/Grid.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/absolute.size.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/arrow.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/as.mask.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/calcStringMetric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/current.viewport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/dataViewport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/depth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/deviceLoc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/drawDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/editDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/editViewport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/explode.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/gEdit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/gPath.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/getNames.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/gpar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.DLapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.add.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.bezier.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.cap.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.circle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.clip.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.convert.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.copy.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.curve.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.delay.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.display.list.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.draw.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.edit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.force.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.function.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.get.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.glyph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.grab.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.grep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.grill.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.grob.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.group.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.layout.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.lines.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.locator.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.ls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.move.to.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.newpage.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.null.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.pack.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.path.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.place.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.plot.and.legend.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.points.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.polygon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.pretty.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.raster.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.record.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.rect.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.refresh.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.remove.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.reorder.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.roundrect.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.segments.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.set.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.show.layout.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.show.viewport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.stroke.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.text.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.xaxis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.xspline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grid.yaxis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/gridCoords.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grobCoords.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grobName.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grobWidth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/grobX.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/legendGrob.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/makeContent.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/patterns.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/plotViewport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/resolveRasterSize.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/showGrob.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/showViewport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/stringWidth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/unit.c.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/unit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/unit.length.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/unit.pmin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/unit.rep.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/unitType.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/valid.just.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/validDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/viewport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/viewportTransform.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/viewports.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/vpPath.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/widthDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/xDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/grid/html/xsplinePoints.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/Lattice.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/Rows.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/USMortality.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/axis.default.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/banking.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/barchart.table.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/barley.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/cloud.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/draw.colorkey.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/draw.key.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/environmental.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/ethanol.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/histogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/interaction.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/lattice.options.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/latticeParseFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/level.colors.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/levelplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/llines.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/lset.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/make.groups.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/melanoma.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/oneway.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/packet.panel.default.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.axis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.barchart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.bwplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.cloud.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.densityplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.dotplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.functions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.histogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.levelplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.loess.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.number.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.pairs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.parallel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.qqmath.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.qqmathline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.smoothScatter.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.spline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.stripplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.superpose.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.violin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/panel.xyplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/prepanel.default.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/prepanel.functions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/print.trellis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/qq.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/qqmath.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/rfs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/shingles.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/simpleKey.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/simpleTheme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/singer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/splom.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/standard.theme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/strip.default.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/tmd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/trellis.device.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/trellis.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/trellis.par.get.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/update.trellis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/utilities.3d.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/xyplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/lattice/html/xyplot.ts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/BasicClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/Classes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/Classes_Details.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/Documentation.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/EmptyMethodsList-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/EnvironmentClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/GenericFunctions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/Introduction.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/LanguageClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/LinearMethodsList-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/MethodDefinition-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/MethodSupport.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/MethodWithNext-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/Methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/MethodsList-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/MethodsList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/Methods_Details.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/Methods_for_Nongenerics.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/Methods_for_S3.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/NextMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/ObjectsWithPackage-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/RClassUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/RMethodUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/S3Part.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/S4groupGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/SClassExtension-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/StructureClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/TraceClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/as.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/callGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/canCoerce.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/cbind2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/className.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/classRepresentation-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/classesToAM.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/dotsMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/evalSource.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/findClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/findMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/fixPrevious.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/genericFunction-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/getClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/getMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/getPackageName.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/hasArg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/implicitGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/inheritedSlotNames.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/initialize-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/is.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/isSealedMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/languageEl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/localRefClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/method.skeleton.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/methodUtilities.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/methods-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/methods-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/methods-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/new.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/nonStructure-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/promptClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/promptMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/refClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/removeMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/representation.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/selectSuperClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setAs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setClassUnion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setGroupGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setIs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setLoadActions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setOldClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/setSClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/show.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/showMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/signature-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/slot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/stdRefClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/substituteDirect.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/testInheritedMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/validObject.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/methods/html/zBasicFunsList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Beta.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/FFdes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/NCV.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.cr.smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.soap.film.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Rrank.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Sl.initial.repara.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Sl.repara.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Sl.setup.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/Tweedie.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/XWXd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/anova.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/bam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/bam.update.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/bandchol.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/blas.thread.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/bug.reports.mgcv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/cSplineDes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/chol.down.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/choose.k.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/cnorm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/columb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/concurvity.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/coxpht.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/dDeta.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/dpnorm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/exclude.too.far.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/extract.lme.cov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/factor.smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/family.mgcv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/fix.family.link.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/fixDependence.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/formXtViX.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/formula.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/fs.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/full.score.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.check.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.convergence.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.fit3.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.fit5.post.proc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.mh.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.models.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.outer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.reparam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.scale.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.selection.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.side.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam.vcomp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gam2objective.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gamObject.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gamSim.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gamlss.etamu.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gamlss.gH.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gamm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gammals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gaulss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/get.var.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gevlss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gfam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/ginla.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/gumbls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/identifiability.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/in.out.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/inSide.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/influence.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/initial.sp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/interpret.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/jagam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/k.check.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/ldTweedie.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/ldetS.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/linear.functional.terms.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/logLik.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/ls.size.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/magic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/magic.post.proc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/mgcv-FAQ.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/mgcv-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/mgcv-parallel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/mini.roots.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/missing.data.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/model.matrix.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/mono.con.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/mroot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/multinom.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/mvn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/negbin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/new.name.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/notExp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/notExp2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/null.space.dimension.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/ocat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/one.se.rule.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/pcls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/pdIdnot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/pdTens.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/pen.edf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/place.knots.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/plot.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/polys.plot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/predict.bam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/predict.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/print.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/psum.chisq.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/qq.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/rTweedie.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/random.effects.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/residuals.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/rig.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/rmvn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/s.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/scat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/sdiag.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/shash.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/single.index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/slanczos.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ad.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.bs.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.cr.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ds.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.fs.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.gp.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.mrf.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ps.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.re.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.so.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.sos.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.sz.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.t2.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.tensor.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.tp.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.info.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth.terms.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smooth2random.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/smoothCon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/sp.vcov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/spasm.construct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/step.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/summary.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/t2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/te.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/tensor.prod.model.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/totalPenaltySpace.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/trichol.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/trind.generator.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/twlss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/uniquecombs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/vcov.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/vis.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/ziP.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/html/ziplss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/ACF.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/ACF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/ACF.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Alfalfa.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Assay.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/BodyWeight.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Cefamandole.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Coef.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Covariate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Covariate.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Dialyzer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Dim.corSpatial.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Dim.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Dim.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Dim.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Earthquake.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Extract.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Fatigue.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Gasoline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Glucose.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Glucose2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Gun.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/IGF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Initialize.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Initialize.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Initialize.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Initialize.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Initialize.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Initialize.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/LDEsysMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Machines.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/MathAchSchool.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/MathAchieve.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Matrix.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Matrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Meat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Milk.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Muscle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Names.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Names.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Names.pdBlocked.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Names.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Names.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Nitrendipene.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Oats.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Orthodont.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Ovary.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Oxboys.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Oxide.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/PBG.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Phenobarb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Pixel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Quinidine.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Rail.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/RatPupWeight.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Relaxin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Remifentanil.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Soybean.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Spruce.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Tetracycline1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Tetracycline2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/VarCorr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.corExp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.corGaus.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.corLin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.corRatio.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.corSpatial.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.corSpher.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.default.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Variogram.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Wafer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Wheat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/Wheat2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/allCoef.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/anova.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/anova.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/as.matrix.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/as.matrix.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/as.matrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/asOneFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/asTable.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/augPred.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/balancedGrouped.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/bdf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/coef.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/coef.gnls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/coef.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/coef.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/coef.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/coef.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/coef.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/coef.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/collapse.groupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/collapse.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/compareFits.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/comparePred.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corAR1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corARMA.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corCAR1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corCompSymm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corExp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corFactor.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corFactor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corGaus.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corLin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corMatrix.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corMatrix.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corMatrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corNatural.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corRatio.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corSpatial.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corSpher.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/corSymm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/ergoStool.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fdHess.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fitted.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fitted.gnlsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fitted.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fitted.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fitted.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fitted.nlmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fixed.effects.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/fixef.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/formula.pdBlocked.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/formula.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/formula.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/gapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getCovariate.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getCovariate.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getCovariate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getCovariate.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getCovariateFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getData.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getData.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getData.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getGroups.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getGroups.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getGroups.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getGroups.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getGroups.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getGroups.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getGroups.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getGroupsFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getResponse.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getResponseFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/getVarCov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/gls-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/glsControl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/glsObject.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/gnls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/gnlsControl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/gnlsObject.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/gnlsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/groupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/gsummary.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/intervals.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/intervals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/intervals.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/intervals.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/isBalanced.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/isInitialized.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/lmList.groupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/lme.groupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/lme.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/lmeControl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/lmeObject.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logDet.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logDet.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logDet.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logDet.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.gnls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.gnlsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/logLik.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/model.matrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/needUpdate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/needUpdate.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/nlme-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/nlme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/nlme.nlsList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/nlmeControl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/nlmeObject.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/nlmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/nlsList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/nlsList.selfStart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pairs.compareFits.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pairs.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pairs.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdBlocked.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdCompSymm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdConstruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdConstruct.pdBlocked.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdDiag.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdFactor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdFactor.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdIdent.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdLogChol.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdMatrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdNatural.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pdSymm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/phenoModel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.ACF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.Variogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.augPred.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.compareFits.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.intervals.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.nffGroupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.nfnGroupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.nmGroupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.ranef.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/plot.ranef.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/pooledSD.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/predict.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/predict.gnls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/predict.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/predict.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/predict.nlme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/print.summary.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/print.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/qqnorm.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/qqnorm.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/quinModel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/random.effects.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/ranef.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/ranef.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/recalc.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/recalc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/recalc.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/recalc.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/recalc.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/residuals.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/residuals.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/residuals.gnlsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/residuals.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/residuals.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/residuals.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/residuals.nlmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/simulate.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/solve.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/solve.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/splitFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/summary.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/summary.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/summary.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/summary.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/summary.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/summary.nlsList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/summary.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/summary.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/update.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/update.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varComb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varConstPower.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varConstProp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varExp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varFixed.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varIdent.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varPower.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varWeights.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varWeights.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nlme/html/varWeights.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nnet/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nnet/html/class.ind.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nnet/html/multinom.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nnet/html/nnet.Hess.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nnet/html/nnet.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nnet/html/predict.nnet.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/nnet/html/which.is.max.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/RngStream.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/children.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/clusterApply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/detectCores.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/makeCluster.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/mcaffinity.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/mcfork.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/mclapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/mcparallel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/parallel-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/pvec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/parallel/html/splitIndices.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/car.test.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/car90.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/cu.summary.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/kyphosis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/labels.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/meanvar.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/na.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/path.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/plot.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/plotcp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/post.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/predict.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/print.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/printcp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/prune.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/residuals.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/rpart-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/rpart.control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/rpart.exp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/rpart.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/rsq.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/snip.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/solder.balance.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/stagec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/summary.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/text.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/rpart/html/xpred.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/Kaver.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/Kenvl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/Kfn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/Psim.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/SSI.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/Strauss.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/anova.trls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/correlogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/expcov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/ppgetregion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/ppinit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/pplik.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/ppregion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/predict.trls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/prmat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/semat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/surf.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/surf.ls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/trls.influence.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/trmat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/spatial/html/variogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/asVector.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/backSpline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/bs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/interpSpline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/ns.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/periodicSpline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/polySpline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/predict.bSpline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/predict.bs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/splineDesign.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/splineKnots.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/splineOrder.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/splines-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/splines/html/xyVector.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/AIC.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ARMAacf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ARMAtoMA.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Beta.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Binomial.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Cauchy.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Chisquare.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Distributions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Exponential.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Fdist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/GammaDist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Geometric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/HoltWinters.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Hypergeometric.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/IQR.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/KalmanLike.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Logistic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Lognormal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Multinom.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/NLSstAsymptotic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/NLSstClosestX.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/NLSstLfAsymptote.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/NLSstRtAsymptote.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/NegBinomial.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Normal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Pair.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Poisson.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSD.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSasymp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSasympOff.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSasympOrig.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSbiexp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSfol.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSfpl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSgompertz.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSlogis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSmicmen.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SSweibull.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/SignRank.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Smirnov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/StructTS.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/TDist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Tukey.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/TukeyHSD.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Uniform.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Weibull.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/Wilcoxon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/acf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/acf2AR.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/add1.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/addmargins.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/aggregate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/alias.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/anova.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/anova.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/anova.lm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/anova.mlm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ansari.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/aov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/approxfun.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ar.ols.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/arima.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/arima.sim.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/arima0.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/as.hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/asOneSidedFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ave.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/bandwidth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/bartlett.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/binom.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/biplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/biplot.princomp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/birthday.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/box.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/cancor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/case.names.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/checkMFClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/chisq.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/cmdscale.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/coef.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/complete.cases.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/confint.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/constrOptim.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/contrast.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/contrasts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/convolve.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/cophenetic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/cor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/cor.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/cov.wt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/cpgram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/cutree.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/decompose.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/delete.response.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/dendrapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/dendrogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/density.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/deriv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/deviance.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/df.residual.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/diffinv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/dist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/dummy.coef.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ecdf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/eff.aovlist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/effects.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/embed.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/expand.model.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/extractAIC.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/factanal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/factor.scope.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/family.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/fft.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/filter.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/fisher.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/fitted.values.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/fivenum.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/fligner.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/formula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/formula.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/friedman.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ftable.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ftable.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/getInitial.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/glm.control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/glm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/glm.summaries.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/heatmap.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/identify.hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/influence.measures.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/integrate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/interaction.plot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/is.empty.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/isoreg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/kernapply.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/kernel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/kmeans.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/kruskal.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ks.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ksmooth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/lag.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/lag.plot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/line.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/listof.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/lm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/lm.influence.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/lm.summaries.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/lmfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/loadings.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/loess.control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/loess.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/logLik.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/loglin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/lowess.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ls.diag.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ls.print.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/lsfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/mad.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/mahalanobis.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/make.link.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/makepredictcall.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/manova.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/mantelhaen.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/mauchly.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/mcnemar.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/median.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/medpolish.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/model.extract.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/model.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/model.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/model.tables.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/monthplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/mood.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/na.action.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/na.contiguous.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/na.fail.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/nafns.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/naprint.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/nextn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/nlm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/nlminb.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/nls.control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/nls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/nobs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/numericDeriv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/offset.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/oneway.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/optim.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/optimize.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/order.dendrogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/p.adjust.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/pairwise.prop.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/pairwise.t.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/pairwise.table.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/pairwise.wilcox.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.HoltWinters.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.acf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.density.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.isoreg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.lm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.ppr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.profile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.profile.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.stepfun.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/plot.ts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/poisson.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/poly.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/power.anova.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/power.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/power.prop.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/power.t.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/pp.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ppoints.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ppr.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/prcomp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/predict.HoltWinters.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/predict.arima.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/predict.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/predict.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/predict.lm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/predict.loess.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/predict.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/predict.smooth.spline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/preplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/princomp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/print.power.htest.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/print.ts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/printCoefmat.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/profile.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/profile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/profile.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/proj.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/prop.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/prop.trend.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/qqnorm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/quade.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/quantile.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/r2dtable.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/rWishart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/read.ftable.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/rect.hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/relevel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/reorder.dendrogram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/reorder.factor.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/replications.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/reshape.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/residuals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/runmed.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/scatter.smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/screeplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/sd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/se.contrast.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/selfStart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/setNames.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/shapiro.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/sigma.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/simulate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/smooth.spline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/smoothEnds.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/sortedXyData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/spec.ar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/spec.pgram.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/spec.taper.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/spectrum.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/splinefun.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/start.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/stat.anova.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/stats-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/stats-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/stats-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/step.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/stepfun.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/stl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/stlmethods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/summary.aov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/summary.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/summary.lm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/summary.manova.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/summary.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/summary.princomp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/supsmu.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/symnum.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/t.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/termplot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/terms.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/terms.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/terms.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/time.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/toeplitz.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ts-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ts.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ts.plot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/ts.union.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/tsSmooth.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/tsdiag.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/tsp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/uniroot.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/update.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/update.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/var.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/varimax.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/vcov.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/weighted.mean.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/weighted.residuals.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/weights.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/wilcox.test.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/window.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/xtabs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats/html/zC.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/coef-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/confint-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/logLik-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/mle-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/mle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/plot-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/profile-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/profile.mle-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/show-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/stats4-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/summary-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/summary.mle-class.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/update-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/stats4/html/vcov-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/Surv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/Surv2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/Surv2data.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/Survmethods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/aareg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/aeqSurv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/aggregate.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/agreg.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/aml.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/anova.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/attrassign.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/basehaz.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/bladder.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/blogit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/brier.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/cch.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/cgd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/cgd0.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/cipoisson.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/clogit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/cluster.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/colon.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/concordance.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/concordancefit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/cox.zph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/coxph.control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/coxph.detail.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/coxph.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/coxph.wtest.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/coxphms.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/coxsurv.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/diabetic.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/dsurvreg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/finegray.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/flchain.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/frailty.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/gbsg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/heart.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/hoel.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/is.ratetable.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/kidney.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/levels.Surv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/lines.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/logLik.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/logan.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/lung.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/mgus.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/mgus2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/model.frame.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/model.matrix.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/myeloid.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/myeloma.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/nafld.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/neardate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/nsk.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/nwtco.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/ovarian.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/pbc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/pbcseq.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/plot.aareg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/plot.cox.zph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/plot.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/predict.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/predict.survreg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/print.aareg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/print.summary.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/print.summary.survexp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/print.summary.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/print.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/pseudo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/pspline.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/pyears.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/quantile.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/ratetable.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/ratetableDate.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/rats.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/rats2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/reliability.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/residuals.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/residuals.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/residuals.survreg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/retinopathy.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/rhDNase.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/ridge.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/rotterdam.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/royston.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/rttright.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/solder.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/stanford2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/statefig.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/strata.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/summary.aareg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/summary.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/summary.pyears.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/summary.survexp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/summary.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survSplit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survcheck.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survcondense.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survdiff.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survexp.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survexp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survexp.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survexp.us.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survfit.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survfit.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survfit.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survfit.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survfit0.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survfitcoxph.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survival-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survival-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survobrien.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survreg.control.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survreg.distributions.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survreg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survreg.object.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/survregDtest.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/tcut.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/tmerge.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/tobin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/transplant.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/udca.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/untangle.specials.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/uspop2.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/vcov.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/veteran.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/xtfrm.Surv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/yates.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/survival/html/yates_setup.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/TclInterface.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/TkCommands.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/TkWidgetcmds.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/TkWidgets.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tclServiceMode.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tcltk-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tcltk-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tkProgressBar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tkStartGUI.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tk_choose.dir.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tk_choose.files.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tk_messageBox.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tk_select.list.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tcltk/html/tkpager.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/CRANtools.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/HTMLheader.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/HTMLlinks.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/QC.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/Rcmd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/Rd2HTML.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/Rd2txt_options.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/RdTextFilter.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/Rdiff.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/Rdindex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/Rdutils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/SweaveTeXFilter.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/add_datalist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/assertCondition.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/bibstyle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/buildVignette.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/buildVignettes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/charsets.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/checkFF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/checkMD5sums.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/checkPoFiles.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/checkRd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/checkRdaFiles.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/checkTnF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/checkVignettes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/check_packages_in_dir.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/codoc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/compactPDF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/delimMatch.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/dependsOnPkgs.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/encoded.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/fileutils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/find_gs_cmd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/getVignetteInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/loadRdMacros.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/makeLazyLoading.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/make_translations_pkg.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/makevars.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/matchConcordance.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/md5sum.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/package_dependencies.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/package_native_routine_registration_skeleton.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/parseLatex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/parse_Rd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/pkg2HTML.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/print.via.format.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/pskill.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/psnice.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/read.00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/showNonASCII.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/startDynamicHelp.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/testInstalledPackage.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/texi2dvi.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/toHTML.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/toRd.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/toTitleCase.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/tools-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/tools-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/tools-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/undoc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/updatePACKAGES.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/update_pkg_po.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/userdir.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/vignetteEngine.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/vignetteInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/writePACKAGES.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/tools/html/xgettext.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/BATCH.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/COMPILE.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/DLL.version.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/INSTALL.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/LINK.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/PkgUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/Question.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/REMOVE.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/RHOME.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/RShowDoc.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/RSiteSearch.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/Rconsole.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/Rprof.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/Rprofmem.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/Rscript.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/Rtangle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/RweaveLatex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/SHLIB.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/Sweave.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/SweaveSyntConv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/SweaveUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/URLencode.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/View.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/adist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/alarm.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/apropos.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/aregexec.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/arrangeWindows.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/askYesNo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/aspell-utils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/aspell.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/available.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/bibentry.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/browseEnv.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/browseURL.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/browseVignettes.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/bug.report.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/capture.output.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/changedFiles.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/charClass.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/choose.dir.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/choose.files.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/chooseBioCmirror.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/chooseCRANmirror.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/citEntry.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/citation.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/cite.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/clipboard.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/close.socket.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/combn.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/compareVersion.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/contrib.url.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/count.fields.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/create.post.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/data.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/dataentry.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/debugcall.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/debugger.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/demo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/download.file.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/download.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/edit.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/edit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/example.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/file.edit.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/filetest.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/findCRANmirror.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/findLineNum.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/fix.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/flush.console.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/format.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/getAnywhere.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/getFromNamespace.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/getParseData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/getS3method.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/getWindowsHandle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/getWindowsHandles.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/glob2rx.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/globalVariables.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/hasName.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/hashtab.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/head.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/help.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/help.request.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/help.search.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/help.start.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/hsearch-utils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/install.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/installed.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/isS3method.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/isS3stdGen.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/localeToCharset.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/ls_str.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/maintainer.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/make.packages.html.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/make.socket.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/memory.size.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/menu.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/methods.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/mirrorAdmin.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/modifyList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/news.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/nsl.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/object.size.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/package.skeleton.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/packageDescription.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/packageName.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/packageStatus.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/page.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/person.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/personList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/process.events.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/prompt.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/promptData.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/promptPackage.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/rcompgen.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/read.DIF.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/read.fortran.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/read.fwf.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/read.socket.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/read.table.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/readRegistry.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/recover.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/relist.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/remove.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/removeSource.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/roman.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/rtags.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/savehistory.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/select.list.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/sessionInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/setRepositories.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/setWindowTitle.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/shortPathName.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/sourceutils.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/stack.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/str.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/strcapture.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/summaryRprof.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/tar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/toLatex.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/txtProgressBar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/type.convert.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/untar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/unzip.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/update.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/upgrade.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/url.show.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/utils-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/utils-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/utils-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/utils-package.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/vignette.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/warnErrList.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/winDialog.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/winMenus.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/winProgressBar.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/winextras.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/write.table.html
+ for i in /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/utils/html/zip.html
+ chmod +x /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/R/sh/echo.sh
+ chmod +x /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/BATCH /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/COMPILE /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/INSTALL /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/LINK /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/R /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/REMOVE /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Rcmd /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Rd2pdf /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Rdconv /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Rdiff /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Rprof /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Rscript /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/SHLIB /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Stangle /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Sweave /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/build /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/check /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/config /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/exec /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/javareconf /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/libtool /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/mkinstalldirs /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/pager /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/rtags
+ chmod -x /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/mgcv/CITATION /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/doc/R/CAPABILITIES
+ '[' '!' -d /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/include ']'
~/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R ~/build/BUILD/R-4.4.2
+ pushd /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R
+ ln -s ../../include/R include
+ popd
~/build/BUILD/R-4.4.2
+ for i in tex/latex bibtex/bib bibtex/bst
+ mkdir -p /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/texlive/texmf-dist/tex/latex
+ cd /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/texlive/texmf-dist/tex/latex
+ ln -s /usr/share/R/texmf/tex/latex R
+ for i in tex/latex bibtex/bib bibtex/bst
+ mkdir -p /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/texlive/texmf-dist/bibtex/bib
+ cd /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/texlive/texmf-dist/bibtex/bib
+ ln -s /usr/share/R/texmf/bibtex/bib R
+ for i in tex/latex bibtex/bib bibtex/bst
+ mkdir -p /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/texlive/texmf-dist/bibtex/bst
+ cd /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/texlive/texmf-dist/bibtex/bst
+ ln -s /usr/share/R/texmf/bibtex/bst R
+ /usr/bin/find-debuginfo -j6 --strict-build-id -m -i --build-id-seed 4.4.2-1.el9.next --unique-debug-suffix -4.4.2-1.el9.next.x86_64 --unique-debug-src-base R-4.4.2-1.el9.next.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/R-4.4.2
extracting debug info from /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/lib/libR.so
extracting debug info from /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/KernSmooth/libs/KernSmooth.so
extracting debug info from /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Rscript
extracting debug info from /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/library/MASS/libs/MASS.so
extracting debug info from /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/bin/Rscript
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extracting debug info from /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/libRmath.so
original debug info size: 25788kB, size after compression: 24104kB
/usr/bin/sepdebugcrcfix: Updated 33 CRC32s, 0 CRC32s did match.
20830 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs --files /usr/lib64/R/bin/
mangling shebang in /usr/share/R/sh/echo.sh from /bin/sh to #!/usr/bin/sh
mangling shebang in /usr/bin/R from /bin/sh to #!/usr/bin/sh
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.nAEgzV
+ umask 022
+ cd /builddir/build/BUILD
+ cd R-4.4.2
+ ulimit -s 16384
+ TZ=Europe/Paris
+ make check
make[1]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests/Examples'
Testing examples for package 'base'
Testing examples for package 'tools'
  comparing 'tools-Ex.Rout' to 'tools-Ex.Rout.save' ... OK
Testing examples for package 'utils'
Testing examples for package 'grDevices'
  comparing 'grDevices-Ex.Rout' to 'grDevices-Ex.Rout.save' ... OK
Testing examples for package 'graphics'
  comparing 'graphics-Ex.Rout' to 'graphics-Ex.Rout.save' ... OK
Testing examples for package 'stats'
  comparing 'stats-Ex.Rout' to 'stats-Ex.Rout.save' ... NOTE
  401,402d400
  < Warning in HoltWinters(co2) :
  <   optimization difficulties: ERROR: ABNORMAL_TERMINATION_IN_LNSRCH
  7531,7532c7529,7530
  < 	Fisher's Exact Test for Count Data hybrid using asym.chisq. iff
  < 	(exp=5, perc=80, Emin=1)
  ---
  > 	Fisher's Exact Test for Count Data hybrid using asym.chisq. iff (exp=5,
  > 	perc=80, Emin=1)
  12895,12896d12892
  < Warning in HoltWinters(co2) :
  <   optimization difficulties: ERROR: ABNORMAL_TERMINATION_IN_LNSRCH
  14223,14224c14219
  < 	4-sample test for equality of proportions without continuity
  < 	correction
  ---
  > 	4-sample test for equality of proportions without continuity correction
  14253,14254c14248
  < 	4-sample test for equality of proportions without continuity
  < 	correction
  ---
  > 	4-sample test for equality of proportions without continuity correction
Testing examples for package 'datasets'
  comparing 'datasets-Ex.Rout' to 'datasets-Ex.Rout.save' ... OK
Testing examples for package 'methods'
Testing examples for package 'grid'
  comparing 'grid-Ex.Rout' to 'grid-Ex.Rout.save' ... OK
Testing examples for package 'splines'
  comparing 'splines-Ex.Rout' to 'splines-Ex.Rout.save' ... OK
Testing examples for package 'stats4'
  comparing 'stats4-Ex.Rout' to 'stats4-Ex.Rout.save' ... OK
Testing examples for package 'tcltk'
Testing examples for package 'compiler'
Testing examples for package 'parallel'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests/Examples'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running strict specific tests
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running code in 'eval-etc.R' ... OK
  comparing 'eval-etc.Rout' to './eval-etc.Rout.save' ... OK
running code in 'simple-true.R' ... OK
  comparing 'simple-true.Rout' to './simple-true.Rout.save' ... OK
running code in 'arith-true.R' ... OK
  comparing 'arith-true.Rout' to './arith-true.Rout.save' ... OK
running code in 'arith.R' ... OK
  comparing 'arith.Rout' to './arith.Rout.save' ... OK
running code in 'lm-tests.R' ... OK
  comparing 'lm-tests.Rout' to './lm-tests.Rout.save' ... OK
running code in 'ok-errors.R' ... OK
  comparing 'ok-errors.Rout' to './ok-errors.Rout.save' ... OK
running code in 'method-dispatch.R' ... OK
  comparing 'method-dispatch.Rout' to './method-dispatch.Rout.save' ... OK
running code in 'any-all.R' ... OK
  comparing 'any-all.Rout' to './any-all.Rout.save' ... OK
running code in 'structure.R' ... OK
  comparing 'structure.Rout' to './structure.Rout.save' ... OK
running code in 'd-p-q-r-tests.R' ... OK
  comparing 'd-p-q-r-tests.Rout' to './d-p-q-r-tests.Rout.save' ... OK
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
running sloppy specific tests
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running code in 'complex.R' ... OK
  comparing 'complex.Rout' to './complex.Rout.save' ... OK
running code in 'print-tests.R' ... OK
  comparing 'print-tests.Rout' to './print-tests.Rout.save' ... OK
running code in 'lapack.R' ... OK
  comparing 'lapack.Rout' to './lapack.Rout.save' ... OK
running code in 'datasets.R' ... OK
  comparing 'datasets.Rout' to './datasets.Rout.save' ... OK
running code in 'datetime.R' ... OK
  comparing 'datetime.Rout' to './datetime.Rout.save' ... OK
running code in 'iec60559.R' ... OK
  comparing 'iec60559.Rout' to './iec60559.Rout.save' ... OK
running code in 'eval-etc-2.R' ... OK
  comparing 'eval-etc-2.Rout' to './eval-etc-2.Rout.save' ... OK
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
checking Sys.timezone ...
make[4]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running code in 'timezone.R' ... OK
make[4]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running regression tests ...
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running code in 'array-subset.R' ... OK
running code in 'classes-methods.R' ... OK
running code in 'reg-tests-1a.R' ... OK
running code in 'reg-tests-1b.R' ... OK
running code in 'reg-tests-1c.R' ... OK
running code in 'reg-tests-1d.R' ... OK
running code in 'reg-tests-1e.R' ... OK
running code in 'reg-tests-2.R' ... OK
  comparing 'reg-tests-2.Rout' to './reg-tests-2.Rout.save' ... OK
running code in 'reg-examples1.R' ... OK
running code in 'reg-examples2.R' ... OK
running code in 'reg-packages.R' ... OK
running code in 'p-qbeta-strict-tst.R' ... OK
running code in 'd-p-q-r-tst-2.R' ... OK
running code in 'r-strict-tst.R' ... OK
running code in 'reg-IO.R' ... OK
  comparing 'reg-IO.Rout' to './reg-IO.Rout.save' ... OK
running code in 'reg-IO2.R' ... OK
  comparing 'reg-IO2.Rout' to './reg-IO2.Rout.save' ... OK
running code in 'reg-plot.R' ... OK
  comparing 'reg-plot.pdf' to './reg-plot.pdf.save' ... OK
running code in 'reg-S4.R' ... OK
  comparing 'reg-S4.Rout' to './reg-S4.Rout.save' ... OK
running code in 'reg-S4-examples.R' ... OK
running code in 'reg-BLAS.R' ... OK
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running code in 'reg-tests-3.R' ... OK
  comparing 'reg-tests-3.Rout' to './reg-tests-3.Rout.save' ... OK
running code in 'reg-examples3.R' ... OK
  comparing 'reg-examples3.Rout' to './reg-examples3.Rout.save' ... OK
running tests of plotting Latin-1
  expect failure or some differences if not in a Latin-1 or UTF-8 locale
running code in 'reg-plot-latin1.R' ... FAILED
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running tests of Internet functions
make[3]: Entering directory '/builddir/build/BUILD/R-4.4.2/tests'
running code in 'internet.R' ... OK
  comparing 'internet.Rout' to './internet.Rout.save' ...8,10c8,153
< Warning message:
< In nsl("cran.r-project.org") :
<   nsl() was unable to resolve host 'cran.r-project.org'
---
> > 
> > ## As virtually all http sites redirect to https:, we only test the latter
> > 
> > # test do_download (and "record" #{packages}):
> > ap <- available.packages(contrib.url("https://cran.r-project.org"))
> > ## IGNORE_RDIFF_END
> > 
> > # test url connections
> > zz <- url("https://cran.r-project.org/")
> > readLines(zz)
>  [1] "<!DOCTYPE HTML PUBLIC \"-//W3C//DTD HTML 4.01 Frameset//EN\" \"http://www.w3.org/TR/html4/frameset.dtd\">"
>  [2] "<html lang=en>"                                                                                                   
>  [3] "<head>"                                                                                                   
>  [4] "<title>The Comprehensive R Archive Network</title>"                                                       
>  [5] "<META HTTP-EQUIV=\"content-type\" CONTENT=\"text/html; charset=utf-8\">"                                  
>  [6] "<link rel=\"icon\" href=\"favicon.ico\" type=\"image/x-icon\">"                                           
>  [7] "<link rel=\"shortcut icon\" href=\"favicon.ico\" type=\"image/x-icon\">"                                  
>  [8] "<link rel=\"stylesheet\" type=\"text/css\" href=\"R.css\">"                                               
>  [9] "</head>"                                                                                                  
> [10] ""                                                                                                         
> [11] "<FRAMESET cols=\"1*, 4*\" style=\"border: none;\">"                                                       
> [12] "<FRAMESET rows=\"120, 1*\">"                                                                              
> [13] "<FRAME src=\"logo.html\" name=\"logo\" frameborder=0>"                                                    
> [14] "<FRAME src=\"navbar.html\" name=\"contents\" frameborder=0>"                                              
> [15] "</FRAMESET>"                                                                                              
> [16] "<FRAME src=\"banner.shtml\" name=\"banner\" frameborder=0>"                                               
> [17] "<noframes>"                                                                                               
> [18] "<h1>The Comprehensive R Archive Network</h1>"                                                             
> [19] ""                                                                                                         
> [20] "Your browser seems not to support frames,"                                                                
> [21] "here is the <A href=\"navbar.html\">contents page</A> of CRAN."                                           
> [22] "</noframes>"                                                                                              
> [23] "</FRAMESET>"                                                                                              
> [24] "</html>"                                                                                                  
> > close(zz)
> > 
> > # and via read.table, using an r-project.org site
> > read.table("https://developer.R-project.org/inet-tests/ch11b.dat")
>      V1  V2   V3    V4 V5
> 1     1 307  930 36.58  0
> 2     2 307  940 36.73  0
> 3     3 307  950 36.93  0
> 4     4 307 1000 37.15  0
> 5     5 307 1010 37.23  0
> 6     6 307 1020 37.24  0
> 7     7 307 1030 37.24  0
> 8     8 307 1040 36.90  0
> 9     9 307 1050 36.95  0
> 10   10 307 1100 36.89  0
> 11   11 307 1110 36.95  0
> 12   12 307 1120 37.00  0
> 13   13 307 1130 36.90  0
> 14   14 307 1140 36.99  0
> 15   15 307 1150 36.99  0
> 16   16 307 1200 37.01  0
> 17   17 307 1210 37.04  0
> 18   18 307 1220 37.04  0
> 19   19 307 1230 37.14  0
> 20   20 307 1240 37.07  0
> 21   21 307 1250 36.98  0
> 22   22 307 1300 37.01  0
> 23   23 307 1310 36.97  0
> 24   24 307 1320 36.97  0
> 25   25 307 1330 37.12  0
> 26   26 307 1340 37.13  0
> 27   27 307 1350 37.14  0
> 28   28 307 1400 37.15  0
> 29   29 307 1410 37.17  0
> 30   30 307 1420 37.12  0
> 31   31 307 1430 37.12  0
> 32   32 307 1440 37.17  0
> 33   33 307 1450 37.28  0
> 34   34 307 1500 37.28  0
> 35   35 307 1510 37.44  0
> 36   36 307 1520 37.51  0
> 37   37 307 1530 37.64  0
> 38   38 307 1540 37.51  0
> 39   39 307 1550 37.98  1
> 40   40 307 1600 38.02  1
> 41   41 307 1610 38.00  1
> 42   42 307 1620 38.24  1
> 43   43 307 1630 38.10  1
> 44   44 307 1640 38.24  1
> 45   45 307 1650 38.11  1
> 46   46 307 1700 38.02  1
> 47   47 307 1710 38.11  1
> 48   48 307 1720 38.01  1
> 49   49 307 1730 37.91  1
> 50   50 307 1740 37.96  1
> 51   51 307 1750 38.03  1
> 52   52 307 1800 38.17  1
> 53   53 307 1810 38.19  1
> 54   54 307 1820 38.18  1
> 55   55 307 1830 38.15  1
> 56   56 307 1840 38.04  1
> 57   57 307 1850 37.96  1
> 58   58 307 1900 37.84  1
> 59   59 307 1910 37.83  1
> 60   60 307 1920 37.84  1
> 61   61 307 1930 37.74  1
> 62   62 307 1940 37.76  1
> 63   63 307 1950 37.76  1
> 64   64 307 2000 37.64  1
> 65   65 307 2010 37.63  1
> 66   66 307 2020 38.06  1
> 67   67 307 2030 38.19  1
> 68   68 307 2040 38.35  1
> 69   69 307 2050 38.25  1
> 70   70 307 2100 37.86  1
> 71   71 307 2110 37.95  1
> 72   72 307 2120 37.95  1
> 73   73 307 2130 37.76  1
> 74   74 307 2140 37.60  1
> 75   75 307 2150 37.89  1
> 76   76 307 2200 37.86  1
> 77   77 307 2210 37.71  1
> 78   78 307 2220 37.78  1
> 79   79 307 2230 37.82  1
> 80   80 307 2240 37.76  1
> 81   81 307 2250 37.81  1
> 82   82 307 2300 37.84  1
> 83   83 307 2310 38.01  1
> 84   84 307 2320 38.10  1
> 85   85 307 2330 38.15  1
> 86   86 307 2340 37.92  1
> 87   87 307 2350 37.64  1
> 88   88 308    0 37.70  1
> 89   89 308   10 37.46  1
> 90   90 308   20 37.41  1
> 91   91 308   30 37.46  1
> 92   92 308   40 37.56  1
> 93   93 308   50 37.55  1
> 94   94 308  100 37.75  1
> 95   95 308  110 37.76  1
> 96   96 308  120 37.73  1
> 97   97 308  130 37.77  1
> 98   98 308  140 38.01  1
> 99   99 308  150 38.04  1
> 100 100 308  200 38.07  1
> > 
> > showConnections(all = TRUE)
>   description class      mode text   isopen   can read can write
> 0 "stdin"     "terminal" "r"  "text" "opened" "yes"    "no"     
> 1 "stdout"    "terminal" "w"  "text" "opened" "no"     "yes"    
> 2 "stderr"    "terminal" "w"  "text" "opened" "no"     "yes"    
> > 
 OK
make[3]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.4.2/tests'
Processing files: R-4.4.2-1.el9.next.x86_64
Processing files: R-core-4.4.2-1.el9.next.x86_64
+ RPM_EC=0
++ jobs -p
+ exit 0
warning: Duplicate build-ids /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/bin/Rscript and /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib64/R/bin/Rscript
warning: absolute symlink: /usr/share/texlive/texmf-dist/bibtex/bib/R -> /usr/share/R/texmf/bibtex/bib
warning: absolute symlink: /usr/share/texlive/texmf-dist/bibtex/bst/R -> /usr/share/R/texmf/bibtex/bst
warning: absolute symlink: /usr/share/texlive/texmf-dist/tex/latex/R -> /usr/share/R/texmf/tex/latex
Provides: R(ABI) = 4.4 R(KernSmooth) = 2.23.24 R(MASS) = 7.3.61 R(Matrix) = 1.7.1 R(base) = 4.4.2 R(boot) = 1.3.31 R(class) = 7.3.22 R(cluster) = 2.1.6 R(codetools) = 0.2.20 R(compiler) = 4.4.2 R(datasets) = 4.4.2 R(foreign) = 0.8.87 R(grDevices) = 4.4.2 R(graphics) = 4.4.2 R(grid) = 4.4.2 R(lattice) = 0.22.6 R(methods) = 4.4.2 R(mgcv) = 1.9.1 R(nlme) = 3.1.166 R(nnet) = 7.3.19 R(parallel) = 4.4.2 R(rpart) = 4.1.23 R(spatial) = 7.3.17 R(splines) = 4.4.2 R(stats) = 4.4.2 R(stats4) = 4.4.2 R(survival) = 3.7.0 R(tcltk) = 4.4.2 R(tools) = 4.4.2 R(translations) = 4.4.2 R(utils) = 4.4.2 R-KernSmooth = 2.23.24 R-MASS = 7.3.61 R-Matrix = 1.7.1 R-base = 4.4.2 R-boot = 1.3.31 R-class = 7.3.22 R-cluster = 2.1.6 R-codetools = 0.2.20 R-compiler = 4.4.2 R-core = 4.4.2-1.el9.next R-core(x86-64) = 4.4.2-1.el9.next R-datasets = 4.4.2 R-foreign = 0.8.87 R-grDevices = 4.4.2 R-graphics = 4.4.2 R-grid = 4.4.2 R-lattice = 0.22.6 R-methods = 4.4.2 R-mgcv = 1.9.1 R-nlme = 3.1.166 R-nnet = 7.3.19 R-parallel = 4.4.2 R-rpart = 4.1.23 R-spatial = 7.3.17 R-splines = 4.4.2 R-stats = 4.4.2 R-stats4 = 4.4.2 R-survival = 3.7.0 R-tcltk = 4.4.2 R-tools = 4.4.2 R-translations = 4.4.2 R-utils = 4.4.2 config(R-core) = 4.4.2-1.el9.next libR.so()(64bit)
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /bin/sh /usr/bin/sh ld-linux-x86-64.so.2()(64bit) ld-linux-x86-64.so.2(GLIBC_2.2.5)(64bit) ld-linux-x86-64.so.2(GLIBC_2.3)(64bit) libR.so()(64bit) libX11.so.6()(64bit) libXmu.so.6()(64bit) libXt.so.6()(64bit) libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.11)(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.15)(64bit) libc.so.6(GLIBC_2.16)(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.27)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.6)(64bit) libc.so.6(GLIBC_2.7)(64bit) libc.so.6(GLIBC_2.8)(64bit) libcairo.so.2()(64bit) libcurl.so.4()(64bit) libdeflate.so.0()(64bit) libflexiblas.so.3()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgcc_s.so.1(GCC_4.0.0)(64bit) libgobject-2.0.so.0()(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(GOMP_4.5)(64bit) libgomp.so.1(OMP_1.0)(64bit) libicui18n.so.67()(64bit) libicuuc.so.67()(64bit) libjpeg.so.62()(64bit) libjpeg.so.62(LIBJPEG_6.2)(64bit) liblzma.so.5()(64bit) liblzma.so.5(XZ_5.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libpango-1.0.so.0()(64bit) libpangocairo-1.0.so.0()(64bit) libpcre2-8.so.0()(64bit) libpng16.so.16()(64bit) libpng16.so.16(PNG16_0)(64bit) libreadline.so.8()(64bit) libtcl8.6.so()(64bit) libtiff.so.5()(64bit) libtiff.so.5(LIBTIFF_4.0)(64bit) libtirpc.so.3()(64bit) libtirpc.so.3(TIRPC_0.3.0)(64bit) libtk8.6.so()(64bit) libtre.so.5()(64bit) libz.so.1()(64bit) rtld(GNU_HASH)
Obsoletes: R-Matrix < 0.999375-7
Processing files: R-core-devel-4.4.2-1.el9.next.x86_64
Provides: R-Matrix-devel = 1.7.1 R-core-devel = 4.4.2-1.el9.next R-core-devel(x86-64) = 4.4.2-1.el9.next pkgconfig(libR) = 4.4.2
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/pkg-config
Obsoletes: R-Matrix-devel < 0.999375-7
Recommends: devscripts-checkbashisms tex(latex) texinfo-tex tidy
Processing files: R-devel-4.4.2-1.el9.next.x86_64
Processing files: R-java-4.4.2-1.el9.next.x86_64
Processing files: R-java-devel-4.4.2-1.el9.next.x86_64
Processing files: libRmath-4.4.2-1.el9.next.x86_64
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.PP8NmP
+ umask 022
+ cd /builddir/build/BUILD
+ cd R-4.4.2
+ LICENSEDIR=/builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/licenses/libRmath
+ export LC_ALL=C
+ LC_ALL=C
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/licenses/libRmath
+ cp -pr doc/COPYING /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/share/licenses/libRmath
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: libRmath = 4.4.2-1.el9.next libRmath(x86-64) = 4.4.2-1.el9.next libRmath.so()(64bit)
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) rtld(GNU_HASH)
Processing files: libRmath-devel-4.4.2-1.el9.next.x86_64
Provides: libRmath-devel = 4.4.2-1.el9.next libRmath-devel(x86-64) = 4.4.2-1.el9.next pkgconfig(libRmath) = 4.4.2
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/pkg-config
Processing files: libRmath-static-4.4.2-1.el9.next.x86_64
Provides: libRmath-static = 4.4.2-1.el9.next libRmath-static(x86-64) = 4.4.2-1.el9.next
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-debugsource-4.4.2-1.el9.next.x86_64
Provides: R-debugsource = 4.4.2-1.el9.next R-debugsource(x86-64) = 4.4.2-1.el9.next
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-debuginfo-4.4.2-1.el9.next.x86_64
Provides: R-debuginfo = 4.4.2-1.el9.next R-debuginfo(x86-64) = 4.4.2-1.el9.next
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: R-debugsource(x86-64) = 4.4.2-1.el9.next
Processing files: R-core-debuginfo-4.4.2-1.el9.next.x86_64
warning: Duplicate build-ids /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib/debug/usr/bin/Rscript-4.4.2-1.el9.next.x86_64.debug and /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64/usr/lib/debug/usr/lib64/R/bin/Rscript-4.4.2-1.el9.next.x86_64.debug
Provides: R-core-debuginfo = 4.4.2-1.el9.next R-core-debuginfo(x86-64) = 4.4.2-1.el9.next debuginfo(build-id) = 02278289e839f145ed5bc4dd872d47b482019ef9 debuginfo(build-id) = 063c191c0f43f5ebed5daaa2c0fd27f30ceed43f debuginfo(build-id) = 1aa7780146d7ad1efafbf2c41bf7e69cfdfc9db5 debuginfo(build-id) = 1cc62e49a1a70dbec2e2152bc11b516f8adc8592 debuginfo(build-id) = 2df8c5b636a9daa8267202fede05fd91c9157a19 debuginfo(build-id) = 2eb24e75633ea73e4c5b62d685bb9bb5d5d3adda debuginfo(build-id) = 3b9a27c484c16a8eaf11530d8ea2b97e940e1f70 debuginfo(build-id) = 50518afcff5185feaeeaf4d1211375ae71773bab debuginfo(build-id) = 51d28df0292aff549e3fc2321cebe5aa96de759a debuginfo(build-id) = 5d199e3646a6c6065f4f44a292346f717034c50c debuginfo(build-id) = 5f6b7acc4d127eb11e6fbd86f1f0a9d57bc86a3d debuginfo(build-id) = 60a6f969d96aba7f9722ac2e24eeb7c52de60ecd debuginfo(build-id) = 746871d1cd8e639945c73278bec7e6d4152b17f5 debuginfo(build-id) = 832dd9ca8fbaa517cb7483d592f816e57c66582b debuginfo(build-id) = 83f40c5158c91576c117834cd253dba7044c653c debuginfo(build-id) = 8863926bab52d6f6bca422740c313f803c2ff9e1 debuginfo(build-id) = 978820a5337ade1043bb52a43fb66ab28a7f3d42 debuginfo(build-id) = 99f6630f86429c0db115bce0e8fd399bf24ae36d debuginfo(build-id) = a7a4a1b96de1ebd2baaf0efa60dafb3a9142cc7d debuginfo(build-id) = ac88329a41887ddc899a4ca4f66faeb788b136d0 debuginfo(build-id) = b0aa5f3916c3d0a6510d0ec501194185e42ac952 debuginfo(build-id) = c31bd1b47272cc93fdaadd41d808a0a883bd7074 debuginfo(build-id) = c3a21d776c54c5962a4467c497751c6d7fa5d0b9 debuginfo(build-id) = c4781e72e92217b4bed85ef6c102931dd5928278 debuginfo(build-id) = cb45c04f81ca799b59ae1125891a22bf8e70099b debuginfo(build-id) = e3a4eb92af5aec5c9ff78988083c48849905dd1e debuginfo(build-id) = e3af360f60bf6c66de401915b7f155df97fb8c57 debuginfo(build-id) = e41818d098693b1589d2dfe0f129cd6eaf8f3b39 debuginfo(build-id) = e56f8838c8d94c71dabb1edbf94001c0dec8be56 debuginfo(build-id) = f5b0ca78a53fa9e1d9cea5b97dce535ef94258aa debuginfo(build-id) = f987ed467a5235154753053c6b180f3299451bab debuginfo(build-id) = nilnil
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: R-debugsource(x86-64) = 4.4.2-1.el9.next
Processing files: libRmath-debuginfo-4.4.2-1.el9.next.x86_64
Provides: debuginfo(build-id) = 087ff0dbb149962c908b067d65c38b970f31771d libRmath-debuginfo = 4.4.2-1.el9.next libRmath-debuginfo(x86-64) = 4.4.2-1.el9.next
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: R-debugsource(x86-64) = 4.4.2-1.el9.next
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-4.4.2-1.el9.next.x86_64
Wrote: /builddir/build/RPMS/R-core-devel-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/libRmath-debuginfo-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/libRmath-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/libRmath-devel-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/R-debuginfo-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/R-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/R-devel-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/R-java-devel-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/libRmath-static-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/R-java-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/R-debugsource-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/R-core-debuginfo-4.4.2-1.el9.next.x86_64.rpm
Wrote: /builddir/build/RPMS/R-core-4.4.2-1.el9.next.x86_64.rpm
Child return code was: 0