Mock Version: 3.1
Mock Version: 3.1
Mock Version: 3.1
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target aarch64 --nodeps /builddir/build/SPECS/R.spec'], chrootPath='/var/lib/mock/epel8-build-39020870-4873195/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 0xffff9edc3dc0>timeout=201600uid=1000gid=425user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target aarch64 --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'} and shell False
Building target platforms: aarch64
Building for target aarch64
Wrote: /builddir/build/SRPMS/R-4.2.2-1.el8.src.rpm
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target aarch64 --nodeps /builddir/build/SPECS/R.spec'], chrootPath='/var/lib/mock/epel8-build-39020870-4873195/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 0xffff9edc3dc0>timeout=201600uid=1000gid=425user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target aarch64 --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'} and shell False
Building target platforms: aarch64
Building for target aarch64
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.H7tmKB
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf R-4.2.2
+ /usr/bin/gzip -dc /builddir/build/SOURCES/R-4.2.2.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd R-4.2.2
+ /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).
+ cat
+ chmod +x /builddir/build/BUILD/R-4.2.2/R-prov
+ cat
+ chmod +x /builddir/build/BUILD/R-4.2.2/R-req
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.4NXmSe
+ umask 022
+ cd /builddir/build/BUILD
+ cd R-4.2.2
+ sed -i 's|R_LIBS_SITE=${R_LIBS_SITE:-'\''%S'\''}|#R_LIBS_SITE=${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_PRINTCMD=lpr
+ R_PRINTCMD=lpr
+ export R_BROWSER=/usr/bin/xdg-open
+ R_BROWSER=/usr/bin/xdg-open
+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CFLAGS
+ CXXFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CXXFLAGS
+ FFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FFLAGS
+ FCFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FCFLAGS
+ tee CONFIGURE.log
+ LDFLAGS='-Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld'
+ export LDFLAGS
+ '[' 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=aarch64-redhat-linux-gnu --host=aarch64-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 --with-system-tre --with-system-valgrind-headers --with-lapack=openblaso --with-blas=openblaso --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 rdocdir=/usr/share/doc/R rincludedir=/usr/include/R rsharedir=/usr/share/R
configure: WARNING: unrecognized options: --disable-dependency-tracking
checking build system type... aarch64-redhat-linux-gnu
checking host system type... aarch64-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 aarch64-redhat-linux-gnu-gcc... no
checking for 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 how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking whether gcc needs -traditional... no
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 aarch64-redhat-linux-gnu-gfortran... no
checking for aarch64-redhat-linux-gnu-g95... no
checking for aarch64-redhat-linux-gnu-xlf95... no
checking for aarch64-redhat-linux-gnu-f95... no
checking for aarch64-redhat-linux-gnu-fort... no
checking for aarch64-redhat-linux-gnu-ifort... no
checking for aarch64-redhat-linux-gnu-ifc... no
checking for aarch64-redhat-linux-gnu-efc... no
checking for aarch64-redhat-linux-gnu-pgfortran... no
checking for aarch64-redhat-linux-gnu-pgf95... no
checking for aarch64-redhat-linux-gnu-lf95... no
checking for aarch64-redhat-linux-gnu-ftn... no
checking for aarch64-redhat-linux-gnu-nagfor... no
checking for aarch64-redhat-linux-gnu-xlf90... no
checking for aarch64-redhat-linux-gnu-f90... no
checking for aarch64-redhat-linux-gnu-pgf90... no
checking for aarch64-redhat-linux-gnu-pghpf... no
checking for aarch64-redhat-linux-gnu-epcf90... no
checking for aarch64-redhat-linux-gnu-g77... no
checking for aarch64-redhat-linux-gnu-xlf... no
checking for aarch64-redhat-linux-gnu-f77... no
checking for aarch64-redhat-linux-gnu-frt... no
checking for aarch64-redhat-linux-gnu-pgf77... no
checking for aarch64-redhat-linux-gnu-cf77... no
checking for aarch64-redhat-linux-gnu-fort77... no
checking for aarch64-redhat-linux-gnu-fl32... no
checking for aarch64-redhat-linux-gnu-af77... no
checking for gfortran... gfortran
checking whether the compiler supports GNU Fortran... yes
checking whether gfortran accepts -g... yes
checking for aarch64-redhat-linux-gnu-g++... no
checking for aarch64-redhat-linux-gnu-c++... no
checking for aarch64-redhat-linux-gnu-gpp... no
checking for aarch64-redhat-linux-gnu-aCC... no
checking for aarch64-redhat-linux-gnu-CC... no
checking for aarch64-redhat-linux-gnu-cxx... no
checking for aarch64-redhat-linux-gnu-cc++... no
checking for aarch64-redhat-linux-gnu-cl.exe... no
checking for aarch64-redhat-linux-gnu-FCC... no
checking for aarch64-redhat-linux-gnu-KCC... no
checking for aarch64-redhat-linux-gnu-RCC... no
checking for aarch64-redhat-linux-gnu-xlC_r... no
checking for aarch64-redhat-linux-gnu-xlC... no
checking for aarch64-redhat-linux-gnu-clang++... no
checking for g++... g++
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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 aarch64-redhat-linux-gnu-gcc... no
checking for aarch64-redhat-linux-gnu-objcc... no
checking for aarch64-redhat-linux-gnu-objc... no
checking for aarch64-redhat-linux-gnu-cc... no
checking for aarch64-redhat-linux-gnu-CC... no
checking for aarch64-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 g++ can compile ObjC++... no
checking whether  can compile ObjC++... no
checking for Objective C++ compiler... no working ObjC++ compiler found
checking how to print strings... printf
checking for a sed that does not truncate output... (cached) /usr/bin/sed
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 aarch64-redhat-linux-gnu file names to aarch64-redhat-linux-gnu format... func_convert_file_noop
checking how to convert aarch64-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 aarch64-redhat-linux-gnu-objdump... no
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for aarch64-redhat-linux-gnu-dlltool... no
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for aarch64-redhat-linux-gnu-ar... (cached) ar
checking for archiver @FILE support... @
checking for aarch64-redhat-linux-gnu-strip... no
checking for strip... strip
checking for aarch64-redhat-linux-gnu-ranlib... no
checking for ranlib... ranlib
checking for gawk... gawk
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /usr/bin/dd
checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
checking for aarch64-redhat-linux-gnu-mt... no
checking for mt... no
checking if : is a manifest tool... no
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... no
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
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
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld) 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) 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) 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
checking for readline/readline.h... yes
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
checking for dlfcn.h... (cached) yes
checking for fcntl.h... yes
checking for glob.h... yes
checking for grp.h... yes
checking for pwd.h... yes
checking for sched.h... yes
checking for strings.h... (cached) yes
checking for sys/resource.h... yes
checking for sys/select.h... yes
checking for sys/socket.h... yes
checking for sys/stat.h... (cached) yes
checking for sys/time.h... (cached) yes
checking for sys/times.h... yes
checking for sys/utsname.h... yes
checking for unistd.h... (cached) yes
checking for utime.h... yes
checking for arpa/inet.h... yes
checking for elf.h... yes
checking for features.h... yes
checking for floatingpoint.h... no
checking for langinfo.h... yes
checking for netdb.h... yes
checking for netinet/in.h... yes
checking for sys/param.h... (cached) yes
checking for stdalign.h... yes
checking for errno.h... yes
checking for inttypes.h... (cached) yes
checking for limits.h... yes
checking for locale.h... yes
checking for stdarg.h... yes
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
checking whether setjmp.h is POSIX.1 compatible... yes
checking whether sigsetjmp is declared... yes
checking whether siglongjmp is declared... yes
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
checking for size_t... yes
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
checking for intptr_t... yes
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/aarch64-redhat-linux/8 -L/usr/lib/gcc/aarch64-redhat-linux/8/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/aarch64-redhat-linux/8/../../.. -lgfortran -lm
checking how to get verbose linking output from gcc... -v
checking for C libraries of gcc...  -L/usr/lib/gcc/aarch64-redhat-linux/8 -L/usr/lib/gcc/aarch64-redhat-linux/8/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/aarch64-redhat-linux/8/../../.. -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 if need -fno-optimize-sibling-calls for gfortran... yes
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... no
checking whether g++  supports C++20 features with -std=gnu++2a... yes
checking for g++ -std=gnu++14 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 for matherr... no
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
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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 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 library containing xdr_string... no
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 sets errno... no
checking whether mktime works correctly outside 1902-2037... 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
checking whether cacos exists and is declared... yes
checking whether casin exists and is declared... yes
checking whether catan exists and is declared... yes
checking whether ccosh exists and is declared... yes
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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
checking for dgemm_ in -lopenblaso... yes
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 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 wctrans_t... 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
checking for X11/Intrinsic.h... yes
checking for XtToolkitInitialize in -lXt... yes
using X11 ... yes
checking for KeySym... yes
checking for X11/Xmu/Atoms.h... yes
checking for XmuInternAtom in -lXmu... yes
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
checking for tk.h... yes
checking whether compiling/linking Tcl/Tk code works... yes
checking for BSD networking... yes
checking for rpc/types.h... no
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checking for XDR support... no
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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
checking for bzlib.h... yes
checking if bzip2 version >= 1.0.6... yes
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checking for lzma_version_number in -llzma... yes
checking for lzma.h... yes
checking if lzma version >= 5.0.3... yes
checking for pcre2.h... yes
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 ... 7.61.1
checking for curl/curl.h... yes
checking if libcurl is version 7 and >= 7.28.0... yes
checking if libcurl supports https... yes
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checking if libpng version >= 1.2.7... yes
checking for png_create_write_struct in -lpng... yes
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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 special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking for _LARGEFILE_SOURCE value needed for large files... no
checking whether KERN_USRSTACK sysctl is supported... no
checking for visible __lib_stack_end... yes
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 aarch64-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
checking if the linker (/usr/bin/ld) 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
checking for geteuid... yes
checking for getgid... yes
checking for getuid... yes
checking for mempcpy... (cached) yes
checking for munmap... yes
checking for stpcpy... 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
config.status: creating Makeconf
config.status: creating Makefile
config.status: creating doc/Makefile
config.status: creating doc/html/Makefile
config.status: creating doc/manual/Makefile
config.status: creating etc/Makefile
config.status: creating etc/Makeconf
config.status: creating etc/Renviron
config.status: creating etc/javaconf
config.status: creating etc/ldpaths
config.status: creating m4/Makefile
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config.status: creating src/extra/blas/Makefile
config.status: creating src/extra/intl/Makefile
config.status: creating src/extra/tre/Makefile
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configure: WARNING: unrecognized options: --disable-dependency-tracking
R is now configured for aarch64-redhat-linux-gnu
  Source directory:            .
  Installation directory:      /usr
  C compiler:                  gcc  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection
  Fortran fixed-form compiler: gfortran -fno-optimize-sibling-calls -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules
  Default C++ compiler:        g++ -std=gnu++14  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection
  C++11 compiler:              g++ -std=gnu++11  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection
  C++14 compiler:              g++ -std=gnu++14  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection
  C++17 compiler:              g++ -std=gnu++17  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection
  C++20 compiler:              g++ -std=gnu++2a  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection
  Fortran free-form compiler:  gfortran -fno-optimize-sibling-calls -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules
  Obj-C compiler:	        
  Interfaces supported:        X11, tcltk
  External libraries:          pcre2, readline, BLAS(OpenBLAS), LAPACK(generic), tre, curl
  Additional capabilities:     PNG, JPEG, TIFF, NLS, cairo, ICU
  Options enabled:             shared R library, R profiling, memory profiling, static HTML
  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-4.2.2/m4'
make[1]: Nothing to be done for 'R'.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2/m4'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/tools'
make[1]: Nothing to be done for 'R'.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2/tools'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/doc'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/doc/html'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/doc/html'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/doc/manual'
make[2]: Nothing to be done for 'R'.
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/doc/manual'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2/doc'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/etc'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2/etc'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/share'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2/share'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/src'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/scripts'
creating src/scripts/R.fe
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/scripts'
mkdir -p -- ../../bin
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/scripts'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/scripts'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/include'
mkdir -p -- ../../include
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/include/R_ext'
mkdir -p -- ../../../include/R_ext
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/include/R_ext'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/include'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/extra'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/extra/xdr'
making xdr.d from xdr.c
making xdr_float.d from xdr_float.c
making xdr_mem.d from xdr_mem.c
making xdr_stdio.d from xdr_stdio.c
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/extra/xdr'
gcc -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -fvisibility=hidden -c xdr.c -o xdr.o
gcc -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -fvisibility=hidden -c xdr_float.c -o xdr_float.o
gcc -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -fvisibility=hidden -c xdr_mem.c -o xdr_mem.o
gcc -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -fvisibility=hidden -c xdr_stdio.c -o xdr_stdio.o
ar -cr libxdr.a xdr.o xdr_float.o xdr_mem.o xdr_stdio.o
ranlib libxdr.a
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/extra/xdr'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/extra/xdr'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/extra'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/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-4.2.2/src/appl'
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c uncmin.c -o uncmin.o
gfortran -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/src/appl'
#@make install-Linpack
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/appl'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/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-4.2.2/src/nmath'
gcc -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/src/nmath'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/nmath'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/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-4.2.2/src/unix'
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/src/unix'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/unix'
gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H    -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -DR_HOME='"/builddir/build/BUILD/R-4.2.2"' \
  -o Rscript ./Rscript.c
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/unix'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/unix'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 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 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-4.2.2/src/main'
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c CommandLineArgs.c -o CommandLineArgs.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Rdynload.c -o Rdynload.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Renviron.c -o Renviron.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c RNG.c -o RNG.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agrep.c -o agrep.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c altclasses.c -o altclasses.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c altrep.c -o altrep.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c apply.c -o apply.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c arithmetic.c -o arithmetic.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c array.c -o array.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c attrib.c -o attrib.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c bind.c -o bind.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c builtin.c -o builtin.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c character.c -o character.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c clippath.c -o clippath.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coerce.c -o coerce.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c colors.c -o colors.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c complex.c -o complex.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c connections.c -o connections.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c context.c -o context.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cum.c -o cum.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dcf.c -o dcf.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c datetime.c -o datetime.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c debug.c -o debug.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c deparse.c -o deparse.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c devices.c -o devices.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dotcode.c -o dotcode.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dounzip.c -o dounzip.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dstruct.c -o dstruct.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c duplicate.c -o duplicate.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c edit.c -o edit.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c engine.c -o engine.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c envir.c -o envir.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c errors.c -o errors.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c eval.c -o eval.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c format.c -o format.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c gevents.c -o gevents.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c gram.c -o gram.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c gram-ex.c -o gram-ex.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c graphics.c -o graphics.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c grep.c -o grep.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c identical.c -o identical.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c inlined.c -o inlined.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c inspect.c -o inspect.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c internet.c -o internet.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c iosupport.c -o iosupport.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c lapack.c -o lapack.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c list.c -o list.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c localecharset.c -o localecharset.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c logic.c -o logic.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c main.c -o main.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c mapply.c -o mapply.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c mask.c -o mask.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c match.c -o match.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c memory.c -o memory.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c names.c -o names.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c objects.c -o objects.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c options.c -o options.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c paste.c -o paste.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c patterns.c -o patterns.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c platform.c -o platform.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c plot.c -o plot.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c plot3d.c -o plot3d.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c plotmath.c -o plotmath.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c print.c -o print.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c printarray.c -o printarray.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c printvector.c -o printvector.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c printutils.c -o printutils.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c qsort.c -o qsort.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c radixsort.c -o radixsort.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c random.c -o random.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c raw.c -o raw.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c registration.c -o registration.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c relop.c -o relop.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rlocale.c -o rlocale.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c saveload.c -o saveload.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c scan.c -o scan.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c seq.c -o seq.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c serialize.c -o serialize.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sort.c -o sort.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c source.c -o source.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c split.c -o split.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sprintf.c -o sprintf.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c startup.c -o startup.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c subassign.c -o subassign.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c subscript.c -o subscript.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c subset.c -o subset.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c summary.c -o summary.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sysutils.c -o sysutils.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c times.c -o times.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c unique.c -o unique.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c util.c -o util.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c version.c -o version.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c g_alab_her.c -o g_alab_her.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c g_cntrlify.c -o g_cntrlify.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c g_fontdb.c -o g_fontdb.o
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c g_her_glyph.c -o g_her_glyph.o
gfortran -fno-optimize-sibling-calls -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -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 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 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`  ../extra/xdr/libxdr.a   -lopenblaso -lgfortran -lm   -lreadline  -ltre -lpcre2-8 -llzma -lbz2 -lz -lrt -ldl -lm -licuuc -licui18n  
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/main'
mkdir -p -- /builddir/build/BUILD/R-4.2.2/bin/exec
mkdir -p -- /builddir/build/BUILD/R-4.2.2/lib
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/main'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/main'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/main'
gcc  -I../../src/extra/xdr -I. -I../../src/include -I../../src/include  -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Rmain.c -o Rmain.o
gcc -Wl,--export-dynamic -fopenmp  -L"../../lib" -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o R.bin Rmain.o  -lR 
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/main'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/main'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/main'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/main'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/modules'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/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-4.2.2/src/modules/internet'
gcc -I. -I../../../src/include -I../../../src/include  -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection   -fvisibility=hidden -c sockconn.c -o sockconn.o
gcc -shared -L"../../../lib" -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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-4.2.2/src/modules/internet'
mkdir -p -- /builddir/build/BUILD/R-4.2.2/modules
make[5]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/internet'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/internet'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/internet'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/modules/lapack'
making Lapack.d from Lapack.c
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/modules/lapack'
gcc -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Lapack.c -o Lapack.o
gcc -shared -L"../../../lib" -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o lapack.so  Lapack.o  -lR  -lopenblaso -lopenblaso -lgfortran -lm
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/modules/lapack'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/lapack'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/lapack'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/lapack'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/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-4.2.2/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/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/uuid -I/usr/include/harfbuzz -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/uuid -I/usr/include/harfbuzz -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/uuid -I/usr/include/harfbuzz -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rbitmap.c -o rbitmap.o
gcc -shared -L"../../../lib" -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -lpng16 -lz -lcairo -lX11 -lXext  -lX11 -lXt -lXmu  -lR -lm 
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/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/uuid -I/usr/include/harfbuzz -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dataentry.c -o dataentry.o
gcc -shared -L"../../../lib" -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng16 -lz -lcairo -lX11 -lXext  -lX11 -lXt -lXmu  -lR -lm 
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/X11'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/modules/X11'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/X11'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules/X11'
make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/modules'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library'
mkdir -p -- ../../library
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/profile'
building system startup profile
mkdir -p -- ../../../library/base/R
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/profile'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/translations'
building package 'translations'
mkdir -p -- ../../../library/translations
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/translations'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/translations'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/translations'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/base'
building package 'base'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/base'
mkdir -p -- ../../../library/base/demo
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/base'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/base'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
building package 'tools'
mkdir -p -- ../../../library/tools
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
mkdir -p -- ../../../library/tools/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pdscan.c -o pdscan.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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
make[6]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/tools/src'
mkdir -p -- ../../../../library/tools/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/tools/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/tools/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
installing 'sysdata.rda'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/compiler'
building package 'compiler'
mkdir -p -- ../../../library/compiler
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/compiler'
mkdir -p -- ../../../library/compiler/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/compiler'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/compiler'
byte-compiling package 'compiler'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/compiler'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/compiler'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/base'
byte-compiling package 'base'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/base'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
byte-compiling package 'tools'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/tools'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/utils'
building package 'utils'
mkdir -p -- ../../../library/utils
mkdir -p -- ../../../library/utils/doc
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/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-4.2.2/src/library/utils'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/utils'
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c hashtab.c -o hashtab.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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-4.2.2/src/library/utils/src'
mkdir -p -- ../../../../library/utils/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/utils/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/utils/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/utils'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/utils'
installing 'sysdata.rda'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/utils'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/utils'
byte-compiling package 'utils'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/utils'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/utils'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices'
building package 'grDevices'
mkdir -p -- ../../../library/grDevices
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices'
mkdir -p -- ../../../library/grDevices/R
mkdir -p -- ../../../library/grDevices/afm
mkdir -p -- ../../../library/grDevices/enc
mkdir -p -- ../../../library/grDevices/icc
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices'
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c devQuartz.c -o devQuartz.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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
make[6]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices/src'
mkdir -p -- ../../../../library/grDevices/libs
make[7]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices/src/cairo'
making cairoBM.d from cairoBM.c
make[8]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices/src/cairo'
make[9]: Entering directory '/builddir/build/BUILD/R-4.2.2/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/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/uuid -I/usr/include/harfbuzz -I../../../../../src/modules/X11 -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cairoBM.c -o cairoBM.o
gcc -shared -L"../../../../../lib" -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -lpng16 -lz -lcairo  -L"../../../../../lib" -lR -lm 
make[9]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices/src/cairo'
make[8]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices/src/cairo'
make[7]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices/src/cairo'
make[6]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices'
byte-compiling package 'grDevices'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grDevices'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics'
building package 'graphics'
mkdir -p -- ../../../library/graphics
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics'
mkdir -p -- ../../../library/graphics/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics'
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c stem.c -o stem.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o graphics.so init.o base.o graphics.o par.o plot.o plot3d.o stem.o -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics/src'
mkdir -p -- ../../../../library/graphics/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics'
byte-compiling package 'graphics'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/graphics'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/stats'
building package 'stats'
mkdir -p -- ../../../library/stats
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/stats'
mkdir -p -- ../../../library/stats/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/stats'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/stats'
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c influence.c -o influence.o
gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules  -c portsrc.f -o portsrc.o
f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran
portsrc.f:6663:0:
          NCOMP = NCOMP + 1
 
Warning: 'ncomp' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:6574:0:
       INTEGER DEG,HEAD,IC,IP,IPL,IPU,IR,JCOL,JP,JPL,JPU,L,MAXINC,
 
Warning: 'jcol' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:5521:0:
       IF (ALPHAK .LE. ZERO .OR. ALPHAK .LT. LK .OR. ALPHAK .GE. UK)
 
Warning: 'alphak' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:5658:0:
               IF (ALPHAK .GE. TWOPSI*PSIFAC) GO TO 310
 
Warning: 'psifac' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:10412:0:
       V(PREDUC) = HALF * (DABS(ALPHAK)*DST*DST + GTSTA)
 
Warning: 'gtsta' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:10329:0:
       IF (-V(DST0) .GE. ALPHAK .OR. ALPHAK .LT. LK .OR. ALPHAK .GE. UK)
 
Warning: 'alphak' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:10324:0:
       LK = DMAX1(LK, PHI*W(PHIPIN))
 
Warning: 'phi' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:10466:0:
       IF (KA .GE. KAMIN) GO TO 340
 
Warning: 'kamin' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:12243:0:
       V(NREDUC) = NRED
 
Warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:12246:0:
       V(DST0) = DNWTST
 
Warning: 'dnwtst' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:2515:0:
       V(NREDUC) = NRED
 
Warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:2514:0:
  60   V(DST0) = DS0
 
Warning: 'ds0' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:8174:0:
       V(NREDUC) = NRED
 
Warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:8173:0:
  90   V(DST0) = DS0
 
Warning: 'ds0' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:8652:0:
  210  IV(FDH) = HES
 
Warning: 'hes' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:3587:0:
       IF (LIV .LT. MIV2) GO TO 300
 
Warning: 'miv2' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:12079:0:
  270  CALL DITSUM(D, V(G1), IV, LIV, LV, P, V, X)
 
Warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized]
portsrc.f:458:0:
  300  CALL DITSUM(D, V(G1), IV, LIV, LV, P, V, X)
 
Warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized]
gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -lopenblaso -lopenblaso -lgfortran -lm -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/stats/src'
mkdir -p -- ../../../../library/stats/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/stats/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/stats/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/stats'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/stats'
byte-compiling package 'stats'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/stats'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/stats'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/datasets'
building package 'datasets'
mkdir -p -- ../../../library/datasets
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/datasets'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/datasets'
mkdir -p -- ../../../library/datasets/data
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/datasets'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/methods'
building package 'methods'
mkdir -p -- ../../../library/methods
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/methods'
mkdir -p -- ../../../library/methods/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/methods'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/methods'
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c utils.c -o utils.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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-4.2.2/src/library/methods/src'
mkdir -p -- ../../../../library/methods/libs
make[6]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/methods/src'
make[5]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/methods/src'
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/methods'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/methods'
byte-compiling package 'methods'
initializing class and method definitions ... done
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/methods'
make[3]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/methods'
make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grid'
building package 'grid'
mkdir -p -- ../../../library/grid
mkdir -p -- ../../../library/grid/doc
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grid'
mkdir -p -- ../../../library/grid/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grid'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grid'
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c clippath.c -o clippath.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c gpar.c -o gpar.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c grid.c -o grid.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c just.c -o just.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c layout.c -o layout.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c mask.c -o mask.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c matrix.c -o matrix.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c path.c -o path.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c register.c -o register.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c state.c -o state.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c unit.c -o unit.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c util.c -o util.o
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c viewport.c -o viewport.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o grid.so clippath.o gpar.o grid.o just.o layout.o mask.o matrix.o path.o register.o state.o unit.o util.o viewport.o -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grid/src'
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make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/grid'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/grid'
byte-compiling package 'grid'
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make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/splines'
building package 'splines'
mkdir -p -- ../../../library/splines
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/splines'
mkdir -p -- ../../../library/splines/R
make[4]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/splines'
make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/splines'
make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/splines/src'
making splines.d from splines.c
gcc -I"../../../../include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c splines.c -o splines.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o splines.so splines.o -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/splines/src'
mkdir -p -- ../../../../library/splines/libs
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make[4]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/splines'
byte-compiling package 'splines'
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make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/stats4'
building package 'stats4'
mkdir -p -- ../../../library/stats4
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mkdir -p -- ../../../library/stats4/R
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byte-compiling package 'stats4'
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make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/tcltk'
building package 'tcltk'
mkdir -p -- ../../../library/tcltk/R
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mkdir -p -- ../../../library/tcltk/exec
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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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c tcltk_unix.c -o tcltk_unix.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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-4.2.2/src/library/tcltk/src'
mkdir -p -- ../../../../library/tcltk/libs
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byte-compiling package 'tcltk'
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make[3]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/parallel'
building package 'parallel'
mkdir -p -- ../../../library/parallel
mkdir -p -- ../../../library/parallel/doc
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mkdir -p -- ../../../library/parallel/R
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make[5]: Entering directory '/builddir/build/BUILD/R-4.2.2/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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c fork.c -o fork.o
gcc -shared -L../../../../lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR
make[6]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/parallel/src'
mkdir -p -- ../../../../library/parallel/libs
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byte-compiling package 'parallel'
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installing parsed NAMESPACE files
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you should 'make docs' now ...
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creating doc/NEWS
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installing parsed Rd
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  base
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building all R object docs
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    do.call                                 html  
    dontCheck                               html  
    dots                                    html  
    double                                  html  
    dput                                    html  
    drop                                    html  
    droplevels                              html  
    dump                                    html  
    duplicated                              html  
    dynload                                 html  
    eapply                                  html  
    eigen                                   html  
    encodeString                            html  
    environment                             html  
    eval                                    html  
    exists                                  html  
    expand.grid                             html  
    expression                              html  
    extSoftVersion                          html  
    factor                                  html  
    file.access                             html  
    file.choose                             html  
    file.info                               html  
    file.path                               html  
    file.show                               html  
    files                                   html  
    files2                                  html  
    find.package                            html  
    findInterval                            html  
    force                                   html  
    forceAndCall                            html  
    formals                                 html  
    format                                  html  
    format.info                             html  
    format.pval                             html  
    formatDL                                html  
    formatc                                 html  
    function                                html  
    funprog                                 html  
    gc                                      html  
    gc.time                                 html  
    gctorture                               html  
    get                                     html  
    getCallingDLL                           html  
    getDLLRegisteredRoutines                html  
    getLoadedDLLs                           html  
    getNativeSymbolInfo                     html  
    gettext                                 html  
    getwd                                   html  
    gl                                      html  
    grep                                    html  
    grepRaw                                 html  
    groupGeneric                            html  
    grouping                                html  
    gzcon                                   html  
    hexmode                                 html  
    iconv                                   html  
    icuSetCollate                           html  
    identical                               html  
    identity                                html  
    ifelse                                  html  
    integer                                 html  
    interaction                             html  
    interactive                             html  
    invisible                               html  
    is.finite                               html  
    is.function                             html  
    is.language                             html  
    is.object                               html  
    is.recursive                            html  
    is.single                               html  
    is.unsorted                             html  
    isR                                     html  
    isS4                                    html  
    isSymmetric                             html  
    jitter                                  html  
    kappa                                   html  
    kronecker                               html  
    l10n_info                               html  
    labels                                  html  
    lapply                                  html  
    lazyload                                html  
    length                                  html  
    lengths                                 html  
    levels                                  html  
    libPaths                                html  
    libcurlVersion                          html  
    library                                 html  
    library.dynam                           html  
    license                                 html  
    list                                    html  
    list.files                              html  
    list2DF                                 html  
    list2env                                html  
    load                                    html  
    locales                                 html  
    logical                                 html  
    lower.tri                               html  
    ls                                      html  
    make.names                              html  
    make.unique                             html  
    mapply                                  html  
    marginSums                              html  
    mat.or.vec                              html  
    match                                   html  
    match.arg                               html  
    match.call                              html  
    match.fun                               html  
    matmult                                 html  
    matrix                                  html  
    maxCol                                  html  
    mean                                    html  
    memCompress                             html  
    memlimits                               html  
    memory.profile                          html  
    merge                                   html  
    message                                 html  
    missing                                 html  
    mode                                    html  
    mtfrm                                   html  
    name                                    html  
    names                                   html  
    nargs                                   html  
    nchar                                   html  
    nlevels                                 html  
    noquote                                 html  
    norm                                    html  
    normalizePath                           html  
    notyet                                  html  
    nrow                                    html  
    ns-dblcolon                             html  
    ns-hooks                                html  
    ns-internal                             html  
    ns-load                                 html  
    ns-reflect                              html  
    ns-topenv                               html  
    numeric                                 html  
    numeric_version                         html  
    octmode                                 html  
    on.exit                                 html  
    options                                 html  
    order                                   html  
    outer                                   html  
    parse                                   html  
    paste                                   html  
    path.expand                             html  
    pcre_config                             html  
    pipeOp                                  html  
    plot                                    html  
    pmatch                                  html  
    polyroot                                html  
    pos.to.env                              html  
    pretty                                  html  
    print                                   html  
    print.dataframe                         html  
    print.default                           html  
    prmatrix                                html  
    proc.time                               html  
    prod                                    html  
    proportions                             html  
    pushBack                                html  
    qr                                      html  
    qraux                                   html  
    quit                                    html  
    range                                   html  
    rank                                    html  
    rapply                                  html  
    raw                                     html  
    rawConnection                           html  
    rawConversion                           html  
    readBin                                 html  
    readChar                                html  
    readLines                               html  
    readRDS                                 html  
    readRenviron                            html  
    readline                                html  
    reg.finalizer                           html  
    regex                                   html  
    regmatches                              html  
    rep                                     html  
    replace                                 html  
    rev                                     html  
    rle                                     html  
    rm                                      html  
    round.POSIXt                            html  
    row                                     html  
    row.names                               html  
    rowsum                                  html  
    sQuote                                  html  
    sample                                  html  
    save                                    html  
    scale                                   html  
    scan                                    html  
    search                                  html  
    seek                                    html  
    seq.Date                                html  
    seq.POSIXt                              html  
    seq                                     html  
    sequence                                html  
    serialize                               html  
    setTimeLimit                            html  
    sets                                    html  
    shQuote                                 html  
    showConnections                         html  
    sign                                    html  
    sink                                    html  
    slice.index                             html  
    slotOp                                  html  
    socketSelect                            html  
    solve                                   html  
    sort                                    html  
    source                                  html  
    split                                   html  
    sprintf                                 html  
    srcfile                                 html  
    standardGeneric                         html  
    startsWith                              html  
    stop                                    html  
    stopifnot                               html  
    strptime                                html  
    strrep                                  html  
    strsplit                                html  
    strtoi                                  html  
    strtrim                                 html  
    structure                               html  
    strwrap                                 html  
    subset                                  html  
    substitute                              html  
    substr                                  html  
    sum                                     html  
    summary                                 html  
    svd                                     html  
    sweep                                   html  
    switch                                  html  
    sys.parent                              html  
    sys.source                              html  
    system                                  html  
    system.file                             html  
    system.time                             html  
    system2                                 html  
    t                                       html  
    table                                   html  
    tabulate                                html  
    tapply                                  html  
    taskCallback                            html  
    taskCallbackManager                     html  
    taskCallbackNames                       html  
    tempfile                                html  
    textconnections                         html  
    tilde                                   html  
    timezones                               html  
    toString                                html  
    trace                                   html  
    traceback                               html  
    tracemem                                html  
    transform                               html  
    trimws                                  html  
    try                                     html  
    typeof                                  html  
    unique                                  html  
    unlink                                  html  
    unlist                                  html  
    unname                                  html  
    userhooks                               html  
    utf8Conversion                          html  
    validUTF8                               html  
    vector                                  html  
    warning                                 html  
    warnings                                html  
    weekday.POSIXt                          html  
    which                                   html  
    which.min                               html  
    with                                    html  
    withVisible                             html  
    write                                   html  
    writeLines                              html  
    xtfrm                                   html  
    zMachine                                html  
    zScript                                 html  
    zapsmall                                html  
    zpackages                               html  
    zutils                                  html  
    Signals                                 html  
  converting help for package 'tools'
    CRANtools                               html  
    HTMLheader                              html  
    HTMLlinks                               html  
    QC                                      html  
    Rcmd                                    html  
    Rd2HTML                                 html  
    Rd2txt_options                          html  
    RdTextFilter                            html  
    Rdiff                                   html  
    Rdindex                                 html  
    Rdutils                                 html  
    SweaveTeXFilter                         html  
    add_datalist                            html  
    assertCondition                         html  
    bibstyle                                html  
    buildVignette                           html  
    buildVignettes                          html  
    charsets                                html  
    checkFF                                 html  
    checkMD5sums                            html  
    checkPoFiles                            html  
    checkRd                                 html  
    checkRdaFiles                           html  
    checkTnF                                html  
    checkVignettes                          html  
    check_packages_in_dir                   html  
    codoc                                   html  
    compactPDF                              html  
    delimMatch                              html  
    dependsOnPkgs                           html  
    encoded                                 html  
    fileutils                               html  
    find_gs_cmd                             html  
    getVignetteInfo                         html  
    loadRdMacros                            html  
    makeLazyLoading                         html  
    make_translations_pkg                   html  
    makevars                                html  
    md5sum                                  html  
    package_dependencies                    html  
    package_native_routine_registration_skeleton
                                            html  
    parseLatex                              html  
    parse_Rd                                html  
    print.via.format                        html  
    pskill                                  html  
    psnice                                  html  
    read.00Index                            html  
    showNonASCII                            html  
    startDynamicHelp                        html  
    testInstalledPackage                    html  
    texi2dvi                                html  
    toHTML                                  html  
    toRd                                    html  
    toTitleCase                             html  
    tools-defunct                           html  
    tools-deprecated                        html  
    tools-package                           html  
    undoc                                   html  
    updatePACKAGES                          html  
    update_pkg_po                           html  
    userdir                                 html  
    vignetteEngine                          html  
    vignetteInfo                            html  
    writePACKAGES                           html  
    xgettext                                html  
  converting help for package 'utils'
    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  
    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  
    url.show                                html  
    utils-defunct                           html  
    utils-deprecated                        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  
    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.nls                        html  
    plot.spec                               html  
    plot.stepfun                            html  
    plot.ts                                 html  
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    power.anova.test                        html  
    power.prop.test                         html  
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    printCoefmat                            html  
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    profile.nls                             html  
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    prop.trend.test                         html  
    qqnorm                                  html  
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    quantile                                html  
    r2dtable                                html  
    rWishart                                html  
    read.ftable                             html  
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    runmed                                  html  
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    spectrum                                html  
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    supsmu                                  html  
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    update.formula                          html  
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    vcov                                    html  
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    weighted.residuals                      html  
    weights                                 html  
    wilcox.test                             html  
    window                                  html  
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    zC                                      html  
  converting help for package 'datasets'
    AirPassengers                           html  
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    BOD                                     html  
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    EuStockMarkets                          html  
    Formaldehyde                            html  
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    pressure                                html  
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    volcano                                 html  
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    women                                   html  
    zCO2                                    html  
  converting help for package 'methods'
    BasicClasses                            html  
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    LinearMethodsList-class                 html  
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    Methods_Details                         html  
    Methods_for_Nongenerics                 html  
    Methods_for_S3                          html  
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    ObjectsWithPackage-class                html  
    RClassUtils                             html  
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    SClassExtension-class                   html  
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    as                                      html  
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    method.skeleton                         html  
    methodUtilities                         html  
    methods-defunct                         html  
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    setOldClass                             html  
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    showMethods                             html  
    signature-class                         html  
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    testInheritedMethods                    html  
    validObject                             html  
    zBasicFunsList                          html  
  converting help for package 'grid'
    Grid                                    html  
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    calcStringMetric                        html  
    current.viewport                        html  
    dataViewport                            html  
    depth                                   html  
    deviceLoc                               html  
    drawDetails                             html  
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    gEdit                                   html  
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    getNames                                html  
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    grid.place                              html  
    grid.plot.and.legend                    html  
    grid.points                             html  
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    grid.rect                               html  
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    grid.reorder                            html  
    grid.roundrect                          html  
    grid.segments                           html  
    grid.set                                html  
    grid.show.layout                        html  
    grid.show.viewport                      html  
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    grobCoords                              html  
    grobName                                html  
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    grobX                                   html  
    legendGrob                              html  
    makeContent                             html  
    patterns                                html  
    plotViewport                            html  
    resolveRasterSize                       html  
    showGrob                                html  
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    stringWidth                             html  
    unit                                    html  
    unit.c                                  html  
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    valid.just                              html  
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    viewport                                html  
    viewportTransform                       html  
    viewports                               html  
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    widthDetails                            html  
    xDetails                                html  
    xsplinePoints                           html  
  converting help for package 'splines'
    asVector                                html  
    backSpline                              html  
    bs                                      html  
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    periodicSpline                          html  
    polySpline                              html  
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    splineDesign                            html  
    splineKnots                             html  
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    splines-package                         html  
    xyVector                                html  
  converting help for package 'stats4'
    coef-methods                            html  
    confint-methods                         html  
    logLik-methods                          html  
    mle-class                               html  
    mle                                     html  
    plot-methods                            html  
    profile-methods                         html  
    profile.mle-class                       html  
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    stats4-package                          html  
    summary-methods                         html  
    summary.mle-class                       html  
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    vcov-methods                            html  
  converting help for package 'tcltk'
    TclInterface                            html  
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    tk_choose.dir                           html  
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    tkpager                                 html  
  converting help for package 'compiler'
    compile                                 html  
  converting help for package 'parallel'
    RngStream                               html  
    clusterApply                            html  
    detectCores                             html  
    makeCluster                             html  
    parallel-package                        html  
    splitIndices                            html  
    children                                html  
    mcaffinity                              html  
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    mcparallel                              html  
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make[2]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/library/Recommended'
make[2]: Entering directory '/builddir/build/BUILD/R-4.2.2/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
make[3]: Entering directory '/tmp/Rtmp1w2Qdh/R.INSTALL72aa1412a1da9/MASS/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c MASS.c -o MASS.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c lqs.c -o lqs.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o MASS.so MASS.o lqs.o -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/Rtmp1w2Qdh/R.INSTALL72aa1412a1da9/MASS/src'
installing to /builddir/build/BUILD/R-4.2.2/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
    Aids2                                   html  
    Animals                                 html  
    Boston                                  html  
    Cars93                                  html  
    Cushings                                html  
    DDT                                     html  
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    Sitka                                   html  
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    Traffic                                 html  
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    VA                                      html  
    abbey                                   html  
    accdeaths                               html  
    addterm                                 html  
    anorexia                                html  
    anova.negbin                            html  
    area                                    html  
    bacteria                                html  
    bandwidth.nrd                           html  
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    beav1                                   html  
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    biopsy                                  html  
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    cement                                  html  
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    con2tr                                  html  
    confint                                 html  
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    coop                                    html  
    corresp                                 html  
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    cpus                                    html  
    crabs                                   html  
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    drivers                                 html  
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    fgl                                     html  
    fitdistr                                html  
    forbes                                  html  
    fractions                               html  
    galaxies                                html  
    gamma.dispersion                        html  
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    gehan                                   html  
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    ginv                                    html  
    glm.convert                             html  
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    hills                                   html  
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    housing                                 html  
    huber                                   html  
    hubers                                  html  
    immer                                   html  
    isoMDS                                  html  
    kde2d                                   html  
    lda                                     html  
    ldahist                                 html  
    leuk                                    html  
    lm.gls                                  html  
    lm.ridge                                html  
    loglm                                   html  
    loglm1                                  html  
    logtrans                                html  
    lqs                                     html  
    mammals                                 html  
    mca                                     html  
    mcycle                                  html  
    menarche                                html  
    michelson                               html  
    minn38                                  html  
    motors                                  html  
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    mvrnorm                                 html  
    negative.binomial                       html  
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    nlschools                               html  
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    painters                                html  
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    parcoord                                html  
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    phones                                  html  
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    plot.mca                                html  
    plot.profile                            html  
    polr                                    html  
    predict.glmmPQL                         html  
    predict.lda                             html  
    predict.lqs                             html  
    predict.mca                             html  
    predict.qda                             html  
    profile.glm                             html  
    qda                                     html  
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    rational                                html  
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    rlm                                     html  
    rms.curv                                html  
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    snails                                  html  
    stdres                                  html  
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    stepAIC                                 html  
    stormer                                 html  
    studres                                 html  
    summary.loglm                           html  
    summary.negbin                          html  
    summary.rlm                             html  
    survey                                  html  
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    theta.md                                html  
    topo                                    html  
    truehist                                html  
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    waders                                  html  
    whiteside                               html  
    width.SJ                                html  
    write.matrix                            html  
    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
make[3]: Entering directory '/tmp/RtmptmBISS/R.INSTALL72ae229e859ca/lattice/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c threeDplot.c -o threeDplot.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o lattice.so init.o threeDplot.o -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmptmBISS/R.INSTALL72ae229e859ca/lattice/src'
installing to /builddir/build/BUILD/R-4.2.2/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  
    barchart.table                          html  
    barley                                  html  
    cloud                                   html  
    draw.colorkey                           html  
    draw.key                                html  
    environmental                           html  
    ethanol                                 html  
    histogram                               html  
    interaction                             html  
    lattice.options                         html  
    latticeParseFormula                     html  
    level.colors                            html  
    levelplot                               html  
    llines                                  html  
    lset                                    html  
    make.groups                             html  
    melanoma                                html  
    oneway                                  html  
    packet.panel.default                    html  
    panel.axis                              html  
    panel.barchart                          html  
    panel.bwplot                            html  
    panel.cloud                             html  
    panel.densityplot                       html  
    panel.dotplot                           html  
    panel.functions                         html  
    panel.histogram                         html  
    panel.levelplot                         html  
    panel.loess                             html  
    panel.number                            html  
    panel.pairs                             html  
    panel.parallel                          html  
    panel.qqmath                            html  
    panel.qqmathline                        html  
    panel.smoothScatter                     html  
    panel.spline                            html  
    panel.stripplot                         html  
    panel.superpose                         html  
    panel.violin                            html  
    panel.xyplot                            html  
    prepanel.default                        html  
    prepanel.functions                      html  
    print.trellis                           html  
    qq                                      html  
    qqmath                                  html  
    rfs                                     html  
    shingles                                html  
    simpleKey                               html  
    simpleTheme                             html  
    singer                                  html  
    splom                                   html  
    strip.default                           html  
    tmd                                     html  
    trellis.device                          html  
    trellis.object                          html  
    trellis.par.get                         html  
    update.trellis                          html  
    utilities.3d                            html  
    xyplot                                  html  
    xyplot.ts                               html  
** building package indices
** 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
make[3]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c CHMfactor.c -o CHMfactor.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Csparse.c -o Csparse.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c TMatrix_as.c -o TMatrix_as.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Tsparse.c -o Tsparse.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Mutils.c -o Mutils.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c chm_common.c -o chm_common.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cs.c -o cs.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cs_utils.c -o cs_utils.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dense.c -o dense.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dgCMatrix.c -o dgCMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dgTMatrix.c -o dgTMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dgeMatrix.c -o dgeMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dpoMatrix.c -o dpoMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dppMatrix.c -o dppMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dsCMatrix.c -o dsCMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dsyMatrix.c -o dsyMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dspMatrix.c -o dspMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dtCMatrix.c -o dtCMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dtTMatrix.c -o dtTMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dtrMatrix.c -o dtrMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dtpMatrix.c -o dtpMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c factorizations.c -o factorizations.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ldense.c -o ldense.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c lgCMatrix.c -o lgCMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sparseQR.c -o sparseQR.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c abIndex.c -o abIndex.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c packedMatrix.c -o packedMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c unpackedMatrix.c -o unpackedMatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sparse.c -o sparse.o
sparse.c: In function 'R_sparse_drop0':
sparse.c:1099:12: warning: 'nnz_' may be used uninitialized in this function [-Wmaybe-uninitialized]
      while ((kend = pp0[j]) <= nnz_)  \
            ^
make[4]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/CHOLMOD'
( cd Lib ; make clean )
make[5]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/CHOLMOD/Lib'
make[5]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/CHOLMOD/Lib'
make[4]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/CHOLMOD'
make[4]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/COLAMD'
( cd Source ; make clean )
make[5]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/COLAMD/Source'
make[5]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/COLAMD/Source'
make[4]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/COLAMD'
make[4]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/AMD'
( cd Source ; make clean )
make[5]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/AMD/Source'
make[5]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/AMD/Source'
make[4]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/AMD'
make[4]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/SuiteSparse_config'
make[4]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/SuiteSparse_config'
make[4]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/CHOLMOD'
( cd Lib ; make -f "/builddir/build/BUILD/R-4.2.2/etc/Makeconf" -f Makefile )
make[5]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/CHOLMOD/Lib'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_aat.c -o cholmod_aat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_add.c -o cholmod_add.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_band.c -o cholmod_band.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_change_factor.c -o cholmod_change_factor.o
In file included from ../Core/cholmod_change_factor.c:113:
../Core/t_cholmod_change_factor.c: In function 'r_change_simplicial_numeric':
../Core/t_cholmod_change_factor.c:37:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
In file included from ../Core/cholmod_change_factor.c:115:
../Core/t_cholmod_change_factor.c: In function 'c_change_simplicial_numeric':
../Core/t_cholmod_change_factor.c:37:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
../Core/cholmod_change_factor.c: In function 'simplicial_symbolic_to_super_symbolic':
../Core/cholmod_change_factor.c:262:17: warning: variable 'xsize' set but not used [-Wunused-but-set-variable]
     Int nsuper, xsize, ssize ;
                 ^~~~~
../Core/cholmod_change_factor.c: In function 'change_simplicial_numeric':
../Core/cholmod_change_factor.c:677:15: warning: variable 'Li' set but not used [-Wunused-but-set-variable]
     Int *Lp, *Li, *Lnz ;
               ^~
../Core/cholmod_change_factor.c:677:10: warning: variable 'Lp' set but not used [-Wunused-but-set-variable]
     Int *Lp, *Li, *Lnz ;
          ^~
../Core/cholmod_change_factor.c:676:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
../Core/cholmod_change_factor.c:676:13: warning: variable 'Lx' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
             ^~
../Core/cholmod_change_factor.c: In function 'll_super_to_simplicial_numeric':
../Core/cholmod_change_factor.c:824:9: warning: variable 'n' set but not used [-Wunused-but-set-variable]
     Int n, lnz, s, nsuper, psi, psend, nsrow, nscol, k1, k2, erows ;
         ^
../Core/cholmod_change_factor.c:823:21: warning: variable 'Lpx' set but not used [-Wunused-but-set-variable]
     Int *Ls, *Lpi, *Lpx, *Super, *Li ;
                     ^~~
../Core/cholmod_change_factor.c:823:10: warning: variable 'Ls' set but not used [-Wunused-but-set-variable]
     Int *Ls, *Lpi, *Lpx, *Super, *Li ;
          ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_common.c -o cholmod_common.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_complex.c -o cholmod_complex.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_copy.c -o cholmod_copy.o
../Core/cholmod_copy.c: In function 'cholmod_copy':
../Core/cholmod_copy.c:275:25: warning: variable 'lo' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, up, lo, values, diag, astype ;
                         ^~
../Core/cholmod_copy.c:275:21: warning: variable 'up' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, up, lo, values, diag, astype ;
                     ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_dense.c -o cholmod_dense.o
In file included from ../Core/cholmod_dense.c:45:
../Core/t_cholmod_dense.c: In function 'p_cholmod_sparse_to_dense':
../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
../Core/t_cholmod_dense.c:27:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
             ^~
In file included from ../Core/cholmod_dense.c:47:
../Core/t_cholmod_dense.c: In function 'r_cholmod_sparse_to_dense':
../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
../Core/t_cholmod_dense.c: In function 'r_cholmod_dense_to_sparse':
../Core/t_cholmod_dense.c:133:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                            ^~
../Core/t_cholmod_dense.c:133:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                       ^~
../Core/t_cholmod_dense.c: In function 'r_cholmod_copy_dense2':
../Core/t_cholmod_dense.c:226:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                            ^~
../Core/t_cholmod_dense.c:226:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                  ^~
In file included from ../Core/cholmod_dense.c:49:
../Core/t_cholmod_dense.c: In function 'c_cholmod_sparse_to_dense':
../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
../Core/t_cholmod_dense.c: In function 'c_cholmod_dense_to_sparse':
../Core/t_cholmod_dense.c:133:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                            ^~
../Core/t_cholmod_dense.c:133:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                       ^~
../Core/t_cholmod_dense.c: In function 'c_cholmod_copy_dense2':
../Core/t_cholmod_dense.c:226:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                            ^~
../Core/t_cholmod_dense.c:226:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                  ^~
../Core/cholmod_dense.c: In function 'cholmod_eye':
../Core/cholmod_dense.c:300:15: warning: variable 'nz' set but not used [-Wunused-but-set-variable]
     Int i, n, nz ;
               ^~
../Core/cholmod_dense.c:299:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz ;
                  ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_error.c -o cholmod_error.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_factor.c -o cholmod_factor.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_memory.c -o cholmod_memory.o
../Core/cholmod_memory.c: In function 'cholmod_malloc':
../Core/cholmod_memory.c:121:12: warning: unused variable 's' [-Wunused-variable]
     size_t s ;
            ^
../Core/cholmod_memory.c: In function 'cholmod_realloc':
../Core/cholmod_memory.c:311:12: warning: unused variable 's' [-Wunused-variable]
     size_t s ;
            ^
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_sparse.c -o cholmod_sparse.o
../Core/cholmod_sparse.c: In function 'cholmod_copy_sparse':
../Core/cholmod_sparse.c:485:35: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
     Int p, pend, j, ncol, packed, nzmax, nz, xtype ;
                                   ^~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_transpose.c -o cholmod_transpose.o
In file included from ../Core/cholmod_transpose.c:121:
../Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:42:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                       ^~
../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c:42:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
             ^~
../Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:139:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                       ^~
../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c:139:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
             ^~
In file included from ../Core/cholmod_transpose.c:123:
../Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from ../Core/cholmod_transpose.c:125:
../Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from ../Core/cholmod_transpose.c:128:
../Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from ../Core/cholmod_transpose.c:130:
../Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
In file included from ../Core/cholmod_transpose.c:133:
../Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_triplet.c -o cholmod_triplet.o
In file included from ../Core/cholmod_triplet.c:105:
../Core/t_cholmod_triplet.c: In function 'p_cholmod_triplet_to_sparse':
../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
../Core/t_cholmod_triplet.c:28:23: warning: variable 'Tx' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                       ^~
../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
../Core/t_cholmod_triplet.c:28:13: warning: variable 'Rx' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
             ^~
In file included from ../Core/cholmod_triplet.c:107:
../Core/t_cholmod_triplet.c: In function 'r_cholmod_triplet_to_sparse':
../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
In file included from ../Core/cholmod_triplet.c:109:
../Core/t_cholmod_triplet.c: In function 'c_cholmod_triplet_to_sparse':
../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
../Core/cholmod_triplet.c: In function 'cholmod_triplet_to_sparse':
../Core/cholmod_triplet.c:342:44: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
     Int i, j, p, k, stype, nrow, ncol, nz, ok ;
                                            ^~
../Core/cholmod_triplet.c:341:20: warning: variable 'Ri' set but not used [-Wunused-but-set-variable]
     Int *Wj, *Rp, *Ri, *Rnz, *Ti, *Tj ;
                    ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Core/cholmod_version.c -o cholmod_version.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Check/cholmod_check.c -o cholmod_check.o
../Check/cholmod_check.c: In function 'check_common':
../Check/cholmod_check.c:204:61: warning: variable 'init_print' set but not used [-Wunused-but-set-variable]
     Int i, nrow, nmethods, ordering, xworksize, amd_backup, init_print ;
                                                             ^~~~~~~~~~
../Check/cholmod_check.c: In function 'check_dense':
../Check/cholmod_check.c:950:37: warning: variable 'nz' set but not used [-Wunused-but-set-variable]
     Int i, j, d, nrow, ncol, nzmax, nz, init_print, count, xtype ;
                                     ^~
../Check/cholmod_check.c: In function 'check_factor':
../Check/cholmod_check.c:1497:2: warning: variable 'ps2' set but not used [-Wunused-but-set-variable]
  ps2, psxend, ssize, xsize, maxcsize, maxesize, nsrow2, jj, ii, xtype ;
  ^~~
../Check/cholmod_check.c:1495:9: warning: variable 'precise' set but not used [-Wunused-but-set-variable]
  count, precise, init_print, ilast, lnz, head, tail, jprev, plast,
         ^~~~~~~
../Check/cholmod_check.c:1494:38: warning: variable 'ordering' set but not used [-Wunused-but-set-variable]
     Int n, nzmax, j, p, pend, i, nz, ordering, space, is_monotonic, minor,
                                      ^~~~~~~~
../Check/cholmod_check.c: In function 'check_factor.constprop':
../Check/cholmod_check.c:1496:55: warning: 'psx' may be used uninitialized in this function [-Wmaybe-uninitialized]
  jnext, examine_super, nsuper, s, k1, k2, psi, psend, psx, nsrow, nscol,
                                                       ^~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Check/cholmod_read.c -o cholmod_read.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Check/cholmod_write.c -o cholmod_write.o
../Check/cholmod_write.c: In function 'cholmod_write_sparse':
../Check/cholmod_write.c:366:33: warning: variable 'symmetry' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, is_complex, symmetry, i, j, q, iz, p, nz, is_binary, stype,
                                 ^~~~~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_amd.c -o cholmod_amd.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_analyze.c -o cholmod_analyze.o
../Cholesky/cholmod_analyze.c: In function 'cholmod_analyze_p2':
../Cholesky/cholmod_analyze.c:419:69: warning: variable 'ncol' set but not used [-Wunused-but-set-variable]
     Int k, n, ordering, method, nmethods, status, default_strategy, ncol, uncol,
                                                                     ^~~~
../Cholesky/cholmod_analyze.c:416:45: warning: variable 'CParent' set but not used [-Wunused-but-set-variable]
     Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent,
                                             ^~~~~~~
../Cholesky/cholmod_analyze.c:416:35: warning: variable 'Cmember' set but not used [-Wunused-but-set-variable]
     Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent,
                                   ^~~~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_colamd.c -o cholmod_colamd.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_etree.c -o cholmod_etree.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_factorize.c -o cholmod_factorize.o
../Cholesky/cholmod_factorize.c: In function 'cholmod_factorize_p':
../Cholesky/cholmod_factorize.c:111:37: warning: variable 'n' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, stype, convert, n, nsuper, grow2, status ;
                                     ^
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_postorder.c -o cholmod_postorder.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_rcond.c -o cholmod_rcond.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_resymbol.c -o cholmod_resymbol.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_rowcolcounts.c -o cholmod_rowcolcounts.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_rowfac.c -o cholmod_rowfac.o
In file included from ../Cholesky/cholmod_rowfac.c:161:
../Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from ../Cholesky/cholmod_rowfac.c:163:
../Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from ../Cholesky/cholmod_rowfac.c:165:
../Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
In file included from ../Cholesky/cholmod_rowfac.c:169:
../Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac_mask':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from ../Cholesky/cholmod_rowfac.c:171:
../Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac_mask':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from ../Cholesky/cholmod_rowfac.c:173:
../Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac_mask':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_solve.c -o cholmod_solve.o
In file included from ../Cholesky/cholmod_solve.c:63:
../Cholesky/t_cholmod_solve.c: In function 'r_ldl_dsolve':
../Cholesky/t_cholmod_solve.c:61:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Yx, *Yz ;
                       ^~
In file included from ../Cholesky/cholmod_solve.c:66:
../Cholesky/t_cholmod_solve.c: In function 'c_ldl_dsolve':
../Cholesky/t_cholmod_solve.c:61:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Yx, *Yz ;
                       ^~
../Cholesky/cholmod_solve.c: In function 'iperm':
../Cholesky/cholmod_solve.c:334:13: warning: variable 'nk' set but not used [-Wunused-but-set-variable]
     Int k2, nk, p, k, j, nrow, ncol, d, dj, j2 ;
             ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Cholesky/cholmod_spsolve.c -o cholmod_spsolve.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_drop.c -o cholmod_drop.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_horzcat.c -o cholmod_horzcat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_norm.c -o cholmod_norm.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_scale.c -o cholmod_scale.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_sdmult.c -o cholmod_sdmult.o
In file included from ../MatrixOps/cholmod_sdmult.c:44:
../MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult':
../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
../MatrixOps/t_cholmod_sdmult.c:49:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                               ^~
../MatrixOps/t_cholmod_sdmult.c:49:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                      ^~
../MatrixOps/t_cholmod_sdmult.c:49:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                            ^~
../MatrixOps/t_cholmod_sdmult.c:49:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                  ^~
In file included from ../MatrixOps/cholmod_sdmult.c:46:
../MatrixOps/t_cholmod_sdmult.c: In function 'c_cholmod_sdmult':
../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
../MatrixOps/t_cholmod_sdmult.c:49:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                               ^~
../MatrixOps/t_cholmod_sdmult.c:49:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                      ^~
../MatrixOps/t_cholmod_sdmult.c:49:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                            ^~
../MatrixOps/t_cholmod_sdmult.c:49:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                  ^~
In file included from ../MatrixOps/cholmod_sdmult.c:48:
../MatrixOps/t_cholmod_sdmult.c: In function 'z_cholmod_sdmult':
../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
In file included from ../Include/cholmod_internal.h:260,
                 from ../MatrixOps/cholmod_sdmult.c:35:
../Include/cholmod_complexity.h:201:47: warning: 'Wz' may be used uninitialized in this function [-Wmaybe-uninitialized]
     x [p] +=   ax [q]  * bx [r] + az [q] * bz [r] ; \
                                               ^
In file included from ../MatrixOps/cholmod_sdmult.c:48:
../MatrixOps/t_cholmod_sdmult.c:49:47: note: 'Wz' was declared here
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                               ^~
In file included from ../Include/cholmod_internal.h:260,
                 from ../MatrixOps/cholmod_sdmult.c:35:
../Include/cholmod_complexity.h:201:29: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized]
     x [p] +=   ax [q]  * bx [r] + az [q] * bz [r] ; \
                             ^
In file included from ../MatrixOps/cholmod_sdmult.c:48:
../MatrixOps/t_cholmod_sdmult.c:49:43: note: 'w' was declared here
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                           ^
In file included from ../Include/cholmod_internal.h:260,
                 from ../MatrixOps/cholmod_sdmult.c:35:
../MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult.isra.0':
../Include/cholmod_complexity.h:44:69: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define R_MULTADDCONJ(x,z,p, ax,az,q, bx,bz,r) x [p] += ax [q] * bx [r]
                                                                     ^
In file included from ../MatrixOps/cholmod_sdmult.c:44:
../MatrixOps/t_cholmod_sdmult.c:49:43: note: 'w' was declared here
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                           ^
In file included from ../MatrixOps/cholmod_sdmult.c:46:
../MatrixOps/cholmod_sdmult.c: In function 'cholmod_sdmult':
../MatrixOps/t_cholmod_sdmult.c:49:43: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                           ^
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_ssmult.c -o cholmod_ssmult.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_submatrix.c -o cholmod_submatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_vertcat.c -o cholmod_vertcat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../MatrixOps/cholmod_symmetry.c -o cholmod_symmetry.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Modify/cholmod_rowadd.c -o cholmod_rowadd.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Modify/cholmod_rowdel.c -o cholmod_rowdel.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Modify/cholmod_updown.c -o cholmod_updown.o
../Modify/cholmod_updown.c: In function 'cholmod_updown_mask2':
../Modify/cholmod_updown.c:433:33: warning: variable 'ps1' set but not used [-Wunused-but-set-variable]
  *Set_ps1 [32], *Set_ps2 [32], *ps1, *ps2 ;
                                 ^~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Supernodal/cholmod_super_numeric.c -o cholmod_super_numeric.o
In file included from ../Supernodal/cholmod_super_numeric.c:82:
../Supernodal/t_cholmod_super_numeric.c: In function 'r_cholmod_super_numeric':
../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \
 
../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q )  \
 
../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( j, i, px, q )                \
 
../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable]
         tail, nscol_new = 0;
         ^~~~
../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable]
         pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1,
         ^~
../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable]
         *Previous;
          ^~~~~~~~
../Supernodal/t_cholmod_super_numeric.c:108:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                                 ^~
../Supernodal/t_cholmod_super_numeric.c:108:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                            ^~
In file included from ../Supernodal/cholmod_super_numeric.c:84:
../Supernodal/t_cholmod_super_numeric.c: In function 'c_cholmod_super_numeric':
../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \
 
../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q )  \
 
../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( j, i, px, q )                \
 
../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable]
         tail, nscol_new = 0;
         ^~~~
../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable]
         pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1,
         ^~
../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable]
         *Previous;
          ^~~~~~~~
../Supernodal/t_cholmod_super_numeric.c:108:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                                 ^~
../Supernodal/t_cholmod_super_numeric.c:108:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                            ^~
In file included from ../Supernodal/cholmod_super_numeric.c:86:
../Supernodal/t_cholmod_super_numeric.c: In function 'z_cholmod_super_numeric':
../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \
 
../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q )  \
 
../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( j, i, px, q )                \
 
../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable]
         tail, nscol_new = 0;
         ^~~~
../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable]
         pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1,
         ^~
../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable]
         *Previous;
          ^~~~~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Supernodal/cholmod_super_solve.c -o cholmod_super_solve.o
In file included from ../Supernodal/cholmod_super_solve.c:26:
../Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_lsolve':
../Supernodal/t_cholmod_super_solve.c:30:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
../Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_ltsolve':
../Supernodal/t_cholmod_super_solve.c:238:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
In file included from ../Supernodal/cholmod_super_solve.c:28:
../Supernodal/t_cholmod_super_solve.c: In function 'c_cholmod_super_lsolve':
../Supernodal/t_cholmod_super_solve.c:30:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
../Supernodal/t_cholmod_super_solve.c: In function 'c_cholmod_super_ltsolve':
../Supernodal/t_cholmod_super_solve.c:238:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ../Supernodal/cholmod_super_symbolic.c -o cholmod_super_symbolic.o
../Supernodal/cholmod_super_symbolic.c: In function 'cholmod_super_symbolic2':
../Supernodal/cholmod_super_symbolic.c:562:7: warning: variable 'totsize' set but not used [-Wunused-but-set-variable]
   Int totsize ;
       ^~~~~~~
../Supernodal/cholmod_super_symbolic.c:185:12: warning: unused variable 'max_fraction' [-Wunused-variable]
     double max_fraction;
            ^~~~~~~~~~~~
../Supernodal/cholmod_super_symbolic.c:184:17: warning: unused variable 'env_max_fraction' [-Wunused-variable]
     const char* env_max_fraction;
                 ^~~~~~~~~~~~~~~~
../Supernodal/cholmod_super_symbolic.c:183:12: warning: unused variable 'max_bytes' [-Wunused-variable]
     size_t max_bytes;
            ^~~~~~~~~
../Supernodal/cholmod_super_symbolic.c:182:17: warning: unused variable 'env_max_bytes' [-Wunused-variable]
     const char* env_max_bytes;
                 ^~~~~~~~~~~~~
../Supernodal/cholmod_super_symbolic.c:181:17: warning: unused variable 'env_use_gpu' [-Wunused-variable]
     const char* env_use_gpu;
                 ^~~~~~~~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_aat.c -o cholmod_l_aat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_add.c -o cholmod_l_add.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_band.c -o cholmod_l_band.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_change_factor.c -o cholmod_l_change_factor.o
In file included from ../Core/cholmod_change_factor.c:113:
../Core/t_cholmod_change_factor.c: In function 'r_change_simplicial_numeric':
../Core/t_cholmod_change_factor.c:37:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
In file included from ../Core/cholmod_change_factor.c:115:
../Core/t_cholmod_change_factor.c: In function 'c_change_simplicial_numeric':
../Core/t_cholmod_change_factor.c:37:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
../Core/cholmod_change_factor.c: In function 'simplicial_symbolic_to_super_symbolic':
../Core/cholmod_change_factor.c:262:17: warning: variable 'xsize' set but not used [-Wunused-but-set-variable]
     Int nsuper, xsize, ssize ;
                 ^~~~~
../Core/cholmod_change_factor.c: In function 'change_simplicial_numeric':
../Core/cholmod_change_factor.c:677:15: warning: variable 'Li' set but not used [-Wunused-but-set-variable]
     Int *Lp, *Li, *Lnz ;
               ^~
../Core/cholmod_change_factor.c:677:10: warning: variable 'Lp' set but not used [-Wunused-but-set-variable]
     Int *Lp, *Li, *Lnz ;
          ^~
../Core/cholmod_change_factor.c:676:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
../Core/cholmod_change_factor.c:676:13: warning: variable 'Lx' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
             ^~
../Core/cholmod_change_factor.c: In function 'll_super_to_simplicial_numeric':
../Core/cholmod_change_factor.c:824:9: warning: variable 'n' set but not used [-Wunused-but-set-variable]
     Int n, lnz, s, nsuper, psi, psend, nsrow, nscol, k1, k2, erows ;
         ^
../Core/cholmod_change_factor.c:823:21: warning: variable 'Lpx' set but not used [-Wunused-but-set-variable]
     Int *Ls, *Lpi, *Lpx, *Super, *Li ;
                     ^~~
../Core/cholmod_change_factor.c:823:10: warning: variable 'Ls' set but not used [-Wunused-but-set-variable]
     Int *Ls, *Lpi, *Lpx, *Super, *Li ;
          ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_common.c -o cholmod_l_common.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_complex.c -o cholmod_l_complex.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_copy.c -o cholmod_l_copy.o
../Core/cholmod_copy.c: In function 'cholmod_l_copy':
../Core/cholmod_copy.c:275:25: warning: variable 'lo' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, up, lo, values, diag, astype ;
                         ^~
../Core/cholmod_copy.c:275:21: warning: variable 'up' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, up, lo, values, diag, astype ;
                     ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_dense.c -o cholmod_l_dense.o
In file included from ../Core/cholmod_dense.c:45:
../Core/t_cholmod_dense.c: In function 'p_cholmod_sparse_to_dense':
../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
../Core/t_cholmod_dense.c:27:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
             ^~
In file included from ../Core/cholmod_dense.c:47:
../Core/t_cholmod_dense.c: In function 'r_cholmod_sparse_to_dense':
../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
../Core/t_cholmod_dense.c: In function 'r_cholmod_dense_to_sparse':
../Core/t_cholmod_dense.c:133:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                            ^~
../Core/t_cholmod_dense.c:133:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                       ^~
../Core/t_cholmod_dense.c: In function 'r_cholmod_copy_dense2':
../Core/t_cholmod_dense.c:226:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                            ^~
../Core/t_cholmod_dense.c:226:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                  ^~
In file included from ../Core/cholmod_dense.c:49:
../Core/t_cholmod_dense.c: In function 'c_cholmod_sparse_to_dense':
../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
../Core/t_cholmod_dense.c: In function 'c_cholmod_dense_to_sparse':
../Core/t_cholmod_dense.c:133:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                            ^~
../Core/t_cholmod_dense.c:133:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                       ^~
../Core/t_cholmod_dense.c: In function 'c_cholmod_copy_dense2':
../Core/t_cholmod_dense.c:226:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                            ^~
../Core/t_cholmod_dense.c:226:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                  ^~
../Core/cholmod_dense.c: In function 'cholmod_l_eye':
../Core/cholmod_dense.c:300:15: warning: variable 'nz' set but not used [-Wunused-but-set-variable]
     Int i, n, nz ;
               ^~
../Core/cholmod_dense.c:299:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz ;
                  ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_error.c -o cholmod_l_error.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_factor.c -o cholmod_l_factor.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_memory.c -o cholmod_l_memory.o
../Core/cholmod_memory.c: In function 'cholmod_l_malloc':
../Core/cholmod_memory.c:121:12: warning: unused variable 's' [-Wunused-variable]
     size_t s ;
            ^
../Core/cholmod_memory.c: In function 'cholmod_l_realloc':
../Core/cholmod_memory.c:311:12: warning: unused variable 's' [-Wunused-variable]
     size_t s ;
            ^
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_sparse.c -o cholmod_l_sparse.o
../Core/cholmod_sparse.c: In function 'cholmod_l_copy_sparse':
../Core/cholmod_sparse.c:485:35: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
     Int p, pend, j, ncol, packed, nzmax, nz, xtype ;
                                   ^~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_transpose.c -o cholmod_l_transpose.o
In file included from ../Core/cholmod_transpose.c:121:
../Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:42:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                       ^~
../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c:42:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
             ^~
../Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:139:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                       ^~
../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c:139:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
             ^~
In file included from ../Core/cholmod_transpose.c:123:
../Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from ../Core/cholmod_transpose.c:125:
../Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from ../Core/cholmod_transpose.c:128:
../Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
../Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from ../Core/cholmod_transpose.c:130:
../Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
In file included from ../Core/cholmod_transpose.c:133:
../Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_unsym':
../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
../Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_sym':
../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_triplet.c -o cholmod_l_triplet.o
In file included from ../Core/cholmod_triplet.c:105:
../Core/t_cholmod_triplet.c: In function 'p_cholmod_triplet_to_sparse':
../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
../Core/t_cholmod_triplet.c:28:23: warning: variable 'Tx' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                       ^~
../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
../Core/t_cholmod_triplet.c:28:13: warning: variable 'Rx' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
             ^~
In file included from ../Core/cholmod_triplet.c:107:
../Core/t_cholmod_triplet.c: In function 'r_cholmod_triplet_to_sparse':
../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
In file included from ../Core/cholmod_triplet.c:109:
../Core/t_cholmod_triplet.c: In function 'c_cholmod_triplet_to_sparse':
../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
../Core/cholmod_triplet.c: In function 'cholmod_l_triplet_to_sparse':
../Core/cholmod_triplet.c:342:44: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
     Int i, j, p, k, stype, nrow, ncol, nz, ok ;
                                            ^~
../Core/cholmod_triplet.c:341:20: warning: variable 'Ri' set but not used [-Wunused-but-set-variable]
     Int *Wj, *Rp, *Ri, *Rnz, *Ti, *Tj ;
                    ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Core/cholmod_version.c -o cholmod_l_version.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Check/cholmod_check.c -o cholmod_l_check.o
../Check/cholmod_check.c: In function 'check_common':
../Check/cholmod_check.c:204:61: warning: variable 'init_print' set but not used [-Wunused-but-set-variable]
     Int i, nrow, nmethods, ordering, xworksize, amd_backup, init_print ;
                                                             ^~~~~~~~~~
../Check/cholmod_check.c: In function 'check_dense':
../Check/cholmod_check.c:950:37: warning: variable 'nz' set but not used [-Wunused-but-set-variable]
     Int i, j, d, nrow, ncol, nzmax, nz, init_print, count, xtype ;
                                     ^~
../Check/cholmod_check.c: In function 'check_factor':
../Check/cholmod_check.c:1497:2: warning: variable 'ps2' set but not used [-Wunused-but-set-variable]
  ps2, psxend, ssize, xsize, maxcsize, maxesize, nsrow2, jj, ii, xtype ;
  ^~~
../Check/cholmod_check.c:1495:9: warning: variable 'precise' set but not used [-Wunused-but-set-variable]
  count, precise, init_print, ilast, lnz, head, tail, jprev, plast,
         ^~~~~~~
../Check/cholmod_check.c:1494:38: warning: variable 'ordering' set but not used [-Wunused-but-set-variable]
     Int n, nzmax, j, p, pend, i, nz, ordering, space, is_monotonic, minor,
                                      ^~~~~~~~
../Check/cholmod_check.c: In function 'check_factor.constprop':
../Check/cholmod_check.c:1496:55: warning: 'psx' may be used uninitialized in this function [-Wmaybe-uninitialized]
  jnext, examine_super, nsuper, s, k1, k2, psi, psend, psx, nsrow, nscol,
                                                       ^~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Check/cholmod_read.c -o cholmod_l_read.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Check/cholmod_write.c -o cholmod_l_write.o
../Check/cholmod_write.c: In function 'cholmod_l_write_sparse':
../Check/cholmod_write.c:366:33: warning: variable 'symmetry' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, is_complex, symmetry, i, j, q, iz, p, nz, is_binary, stype,
                                 ^~~~~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_amd.c -o cholmod_l_amd.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_analyze.c -o cholmod_l_analyze.o
../Cholesky/cholmod_analyze.c: In function 'cholmod_l_analyze_p2':
../Cholesky/cholmod_analyze.c:419:69: warning: variable 'ncol' set but not used [-Wunused-but-set-variable]
     Int k, n, ordering, method, nmethods, status, default_strategy, ncol, uncol,
                                                                     ^~~~
../Cholesky/cholmod_analyze.c:416:45: warning: variable 'CParent' set but not used [-Wunused-but-set-variable]
     Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent,
                                             ^~~~~~~
../Cholesky/cholmod_analyze.c:416:35: warning: variable 'Cmember' set but not used [-Wunused-but-set-variable]
     Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent,
                                   ^~~~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_colamd.c -o cholmod_l_colamd.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_etree.c -o cholmod_l_etree.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_factorize.c -o cholmod_l_factorize.o
../Cholesky/cholmod_factorize.c: In function 'cholmod_l_factorize_p':
../Cholesky/cholmod_factorize.c:111:37: warning: variable 'n' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, stype, convert, n, nsuper, grow2, status ;
                                     ^
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_postorder.c -o cholmod_l_postorder.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_rcond.c -o cholmod_l_rcond.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_resymbol.c -o cholmod_l_resymbol.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_rowcolcounts.c -o cholmod_l_rowcolcounts.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_rowfac.c -o cholmod_l_rowfac.o
In file included from ../Cholesky/cholmod_rowfac.c:161:
../Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from ../Cholesky/cholmod_rowfac.c:163:
../Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from ../Cholesky/cholmod_rowfac.c:165:
../Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
In file included from ../Cholesky/cholmod_rowfac.c:169:
../Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac_mask':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from ../Cholesky/cholmod_rowfac.c:171:
../Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac_mask':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from ../Cholesky/cholmod_rowfac.c:173:
../Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac_mask':
../Cholesky/t_cholmod_rowfac.c:50:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_solve.c -o cholmod_l_solve.o
In file included from ../Cholesky/cholmod_solve.c:63:
../Cholesky/t_cholmod_solve.c: In function 'r_ldl_dsolve':
../Cholesky/t_cholmod_solve.c:61:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Yx, *Yz ;
                       ^~
In file included from ../Cholesky/cholmod_solve.c:66:
../Cholesky/t_cholmod_solve.c: In function 'c_ldl_dsolve':
../Cholesky/t_cholmod_solve.c:61:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Yx, *Yz ;
                       ^~
../Cholesky/cholmod_solve.c: In function 'iperm':
../Cholesky/cholmod_solve.c:334:13: warning: variable 'nk' set but not used [-Wunused-but-set-variable]
     Int k2, nk, p, k, j, nrow, ncol, d, dj, j2 ;
             ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Cholesky/cholmod_spsolve.c -o cholmod_l_spsolve.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_drop.c -o cholmod_l_drop.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_horzcat.c -o cholmod_l_horzcat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_norm.c -o cholmod_l_norm.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_scale.c -o cholmod_l_scale.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_sdmult.c -o cholmod_l_sdmult.o
In file included from ../MatrixOps/cholmod_sdmult.c:44:
../MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult':
../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
../MatrixOps/t_cholmod_sdmult.c:49:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                               ^~
../MatrixOps/t_cholmod_sdmult.c:49:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                      ^~
../MatrixOps/t_cholmod_sdmult.c:49:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                            ^~
../MatrixOps/t_cholmod_sdmult.c:49:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                  ^~
In file included from ../MatrixOps/cholmod_sdmult.c:46:
../MatrixOps/t_cholmod_sdmult.c: In function 'c_cholmod_sdmult':
../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
../MatrixOps/t_cholmod_sdmult.c:49:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                               ^~
../MatrixOps/t_cholmod_sdmult.c:49:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                      ^~
../MatrixOps/t_cholmod_sdmult.c:49:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                            ^~
../MatrixOps/t_cholmod_sdmult.c:49:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                  ^~
In file included from ../MatrixOps/cholmod_sdmult.c:48:
../MatrixOps/t_cholmod_sdmult.c: In function 'z_cholmod_sdmult':
../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
In file included from ../Include/cholmod_internal.h:260,
                 from ../MatrixOps/cholmod_sdmult.c:35:
../Include/cholmod_complexity.h:201:47: warning: 'Wz' may be used uninitialized in this function [-Wmaybe-uninitialized]
     x [p] +=   ax [q]  * bx [r] + az [q] * bz [r] ; \
                                               ^
In file included from ../MatrixOps/cholmod_sdmult.c:48:
../MatrixOps/t_cholmod_sdmult.c:49:47: note: 'Wz' was declared here
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                               ^~
In file included from ../Include/cholmod_internal.h:260,
                 from ../MatrixOps/cholmod_sdmult.c:35:
../Include/cholmod_complexity.h:201:29: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized]
     x [p] +=   ax [q]  * bx [r] + az [q] * bz [r] ; \
                             ^
In file included from ../MatrixOps/cholmod_sdmult.c:48:
../MatrixOps/t_cholmod_sdmult.c:49:43: note: 'w' was declared here
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                           ^
In file included from ../Include/cholmod_internal.h:260,
                 from ../MatrixOps/cholmod_sdmult.c:35:
../MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult.isra.0':
../Include/cholmod_complexity.h:44:69: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define R_MULTADDCONJ(x,z,p, ax,az,q, bx,bz,r) x [p] += ax [q] * bx [r]
                                                                     ^
In file included from ../MatrixOps/cholmod_sdmult.c:44:
../MatrixOps/t_cholmod_sdmult.c:49:43: note: 'w' was declared here
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                           ^
In file included from ../MatrixOps/cholmod_sdmult.c:46:
../MatrixOps/cholmod_sdmult.c: In function 'cholmod_l_sdmult':
../MatrixOps/t_cholmod_sdmult.c:49:43: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                           ^
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_ssmult.c -o cholmod_l_ssmult.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_submatrix.c -o cholmod_l_submatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_vertcat.c -o cholmod_l_vertcat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../MatrixOps/cholmod_symmetry.c -o cholmod_l_symmetry.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Modify/cholmod_rowadd.c -o cholmod_l_rowadd.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Modify/cholmod_rowdel.c -o cholmod_l_rowdel.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Modify/cholmod_updown.c -o cholmod_l_updown.o
../Modify/cholmod_updown.c: In function 'cholmod_l_updown_mask2':
../Modify/cholmod_updown.c:433:33: warning: variable 'ps1' set but not used [-Wunused-but-set-variable]
  *Set_ps1 [32], *Set_ps2 [32], *ps1, *ps2 ;
                                 ^~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Supernodal/cholmod_super_numeric.c -o cholmod_l_super_numeric.o
In file included from ../Supernodal/cholmod_super_numeric.c:82:
../Supernodal/t_cholmod_super_numeric.c: In function 'r_cholmod_super_numeric':
../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \
 
../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q )  \
 
../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( j, i, px, q )                \
 
../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable]
         tail, nscol_new = 0;
         ^~~~
../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable]
         pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1,
         ^~
../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable]
         *Previous;
          ^~~~~~~~
../Supernodal/t_cholmod_super_numeric.c:108:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                                 ^~
../Supernodal/t_cholmod_super_numeric.c:108:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                            ^~
In file included from ../Supernodal/cholmod_super_numeric.c:84:
../Supernodal/t_cholmod_super_numeric.c: In function 'c_cholmod_super_numeric':
../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \
 
../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q )  \
 
../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( j, i, px, q )                \
 
../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable]
         tail, nscol_new = 0;
         ^~~~
../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable]
         pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1,
         ^~
../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable]
         *Previous;
          ^~~~~~~~
../Supernodal/t_cholmod_super_numeric.c:108:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                                 ^~
../Supernodal/t_cholmod_super_numeric.c:108:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                            ^~
In file included from ../Supernodal/cholmod_super_numeric.c:86:
../Supernodal/t_cholmod_super_numeric.c: In function 'z_cholmod_super_numeric':
../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \
 
../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q )  \
 
../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS)   \
 
../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
 #pragma omp parallel for private ( j, i, px, q )                \
 
../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable]
         tail, nscol_new = 0;
         ^~~~
../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable]
         pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1,
         ^~
../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable]
         *Previous;
          ^~~~~~~~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Supernodal/cholmod_super_solve.c -o cholmod_l_super_solve.o
In file included from ../Supernodal/cholmod_super_solve.c:26:
../Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_lsolve':
../Supernodal/t_cholmod_super_solve.c:30:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
../Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_ltsolve':
../Supernodal/t_cholmod_super_solve.c:238:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
In file included from ../Supernodal/cholmod_super_solve.c:28:
../Supernodal/t_cholmod_super_solve.c: In function 'c_cholmod_super_lsolve':
../Supernodal/t_cholmod_super_solve.c:30:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
../Supernodal/t_cholmod_super_solve.c: In function 'c_cholmod_super_ltsolve':
../Supernodal/t_cholmod_super_solve.c:238:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -DDLONG -c  ../Supernodal/cholmod_super_symbolic.c -o cholmod_l_super_symbolic.o
../Supernodal/cholmod_super_symbolic.c: In function 'cholmod_l_super_symbolic2':
../Supernodal/cholmod_super_symbolic.c:562:7: warning: variable 'totsize' set but not used [-Wunused-but-set-variable]
   Int totsize ;
       ^~~~~~~
../Supernodal/cholmod_super_symbolic.c:185:12: warning: unused variable 'max_fraction' [-Wunused-variable]
     double max_fraction;
            ^~~~~~~~~~~~
../Supernodal/cholmod_super_symbolic.c:184:17: warning: unused variable 'env_max_fraction' [-Wunused-variable]
     const char* env_max_fraction;
                 ^~~~~~~~~~~~~~~~
../Supernodal/cholmod_super_symbolic.c:183:12: warning: unused variable 'max_bytes' [-Wunused-variable]
     size_t max_bytes;
            ^~~~~~~~~
../Supernodal/cholmod_super_symbolic.c:182:17: warning: unused variable 'env_max_bytes' [-Wunused-variable]
     const char* env_max_bytes;
                 ^~~~~~~~~~~~~
../Supernodal/cholmod_super_symbolic.c:181:17: warning: unused variable 'env_use_gpu' [-Wunused-variable]
     const char* env_use_gpu;
                 ^~~~~~~~~~~
ar -rucs ../../CHOLMOD.a cholmod_aat.o cholmod_add.o cholmod_band.o cholmod_change_factor.o cholmod_common.o cholmod_complex.o cholmod_copy.o cholmod_dense.o cholmod_error.o cholmod_factor.o cholmod_memory.o cholmod_sparse.o cholmod_transpose.o cholmod_triplet.o cholmod_version.o cholmod_check.o cholmod_read.o cholmod_write.o cholmod_amd.o cholmod_analyze.o cholmod_colamd.o cholmod_etree.o cholmod_factorize.o cholmod_postorder.o cholmod_rcond.o cholmod_resymbol.o cholmod_rowcolcounts.o cholmod_rowfac.o cholmod_solve.o cholmod_spsolve.o cholmod_drop.o cholmod_horzcat.o cholmod_norm.o cholmod_scale.o cholmod_sdmult.o cholmod_ssmult.o cholmod_submatrix.o cholmod_vertcat.o cholmod_symmetry.o cholmod_rowadd.o cholmod_rowdel.o cholmod_updown.o cholmod_super_numeric.o cholmod_super_solve.o cholmod_super_symbolic.o  cholmod_l_aat.o cholmod_l_add.o cholmod_l_band.o cholmod_l_change_factor.o cholmod_l_common.o cholmod_l_complex.o cholmod_l_copy.o cholmod_l_dense.o cholmod_l_error.o cholmod_l_factor.o cholmod_l_memory.o cholmod_l_sparse.o cholmod_l_transpose.o cholmod_l_triplet.o cholmod_l_version.o cholmod_l_check.o cholmod_l_read.o cholmod_l_write.o cholmod_l_amd.o cholmod_l_analyze.o cholmod_l_colamd.o cholmod_l_etree.o cholmod_l_factorize.o cholmod_l_postorder.o cholmod_l_rcond.o cholmod_l_resymbol.o cholmod_l_rowcolcounts.o cholmod_l_rowfac.o cholmod_l_solve.o cholmod_l_spsolve.o cholmod_l_drop.o cholmod_l_horzcat.o cholmod_l_norm.o cholmod_l_scale.o cholmod_l_sdmult.o cholmod_l_ssmult.o cholmod_l_submatrix.o cholmod_l_vertcat.o cholmod_l_symmetry.o cholmod_l_rowadd.o cholmod_l_rowdel.o cholmod_l_updown.o cholmod_l_super_numeric.o cholmod_l_super_solve.o cholmod_l_super_symbolic.o 
make[5]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/CHOLMOD/Lib'
make[4]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/CHOLMOD'
make[4]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/COLAMD'
( cd Source ; make -f "/builddir/build/BUILD/R-4.2.2/etc/Makeconf" -f Makefile lib )
make[5]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/COLAMD/Source'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c colamd.c -o colamd.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c colamd.c -o colamd_l.o
ar -rucs ../../COLAMD.a colamd.o colamd_l.o
make[5]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/COLAMD/Source'
make[4]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/COLAMD'
make[4]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/AMD'
( cd Source ; make -f "/builddir/build/BUILD/R-4.2.2/etc/Makeconf" -f Makefile lib )
make[5]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/AMD/Source'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_aat.c -o amd_i_aat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_aat.c -o amd_l_aat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_1.c -o amd_i_1.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_1.c -o amd_l_1.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_2.c -o amd_i_2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_2.c -o amd_l_2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_postorder.c -o amd_i_postorder.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_postorder.c -o amd_l_postorder.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_post_tree.c -o amd_i_post_tree.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_post_tree.c -o amd_l_post_tree.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_defaults.c -o amd_i_defaults.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_defaults.c -o amd_l_defaults.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_order.c -o amd_i_order.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_order.c -o amd_l_order.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_control.c -o amd_i_control.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_control.c -o amd_l_control.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_info.c -o amd_i_info.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_info.c -o amd_l_info.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_valid.c -o amd_i_valid.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_valid.c -o amd_l_valid.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_preprocess.c -o amd_i_preprocess.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_preprocess.c -o amd_l_preprocess.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDINT -c amd_dump.c -o amd_i_dump.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -I../Include -DDLONG -c amd_dump.c -o amd_l_dump.o
ar -rucs ../../AMD.a amd_i_aat.o amd_l_aat.o amd_i_1.o amd_l_1.o amd_i_2.o amd_l_2.o amd_i_postorder.o amd_l_postorder.o amd_i_post_tree.o amd_l_post_tree.o amd_i_defaults.o amd_l_defaults.o amd_i_order.o amd_l_order.o amd_i_control.o amd_l_control.o amd_i_info.o amd_l_info.o amd_i_valid.o amd_l_valid.o amd_i_preprocess.o amd_l_preprocess.o amd_i_dump.o amd_l_dump.o
make[5]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/AMD/Source'
make[4]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/AMD'
make[4]: Entering directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/SuiteSparse_config'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG -DNTIMER  -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c SuiteSparse_config.c -o SuiteSparse_config.o
ar -rucs ../SuiteSparse_config.a SuiteSparse_config.o
make[4]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src/SuiteSparse_config'
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o Matrix.so CHMfactor.o Csparse.o TMatrix_as.o Tsparse.o init.o Mutils.o chm_common.o cs.o cs_utils.o dense.o dgCMatrix.o dgTMatrix.o dgeMatrix.o dpoMatrix.o dppMatrix.o dsCMatrix.o dsyMatrix.o dspMatrix.o dtCMatrix.o dtTMatrix.o dtrMatrix.o dtpMatrix.o factorizations.o ldense.o lgCMatrix.o sparseQR.o abIndex.o packedMatrix.o unpackedMatrix.o sparse.o CHOLMOD.a COLAMD.a AMD.a SuiteSparse_config.a -lopenblaso -lopenblaso -lgfortran -lm -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/Rtmp1eI2lT/R.INSTALL72b107014d499/Matrix/src'
installing to /builddir/build/BUILD/R-4.2.2/library/Matrix/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for 'drop' from package 'base' in package 'Matrix'
Creating a generic function for 'cov2cor' from package 'stats' in package 'Matrix'
Creating a generic function for 'unname' 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"
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 '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 'zapsmall' from package 'base' in package 'Matrix'
Creating a generic function for 'diag' from package 'base' in package 'Matrix'
Creating a generic function for 'crossprod' from package 'base' in package 'Matrix'
Creating a generic function for 'tcrossprod' from package 'base' in package 'Matrix'
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 'diag<-' 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 'qr.R' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.Q' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.qy' 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.coef' 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.fitted' from package 'base' in package 'Matrix'
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-methods                    html  
    CAex                                    html  
    CHMfactor-class                         html  
    Cholesky-class                          html  
    Cholesky                                html  
    CsparseMatrix-class                     html  
    Diagonal                                html  
    Hilbert                                 html  
    KNex                                    html  
    KhatriRao                               html  
    LU-class                                html  
    Matrix-class                            html  
    Matrix                                  html  
    MatrixClass                             html  
    MatrixFactorization-class               html  
    RsparseMatrix-class                     html  
    Schur-class                             html  
    Schur                                   html  
    SparseM-conv                            html  
    Subassign-methods                       html  
    TsparseMatrix-class                     html  
    USCounties                              html  
    Xtrct-methods                           html  
    abIndex-class                           html  
    abIseq                                  html  
    all-methods                             html  
    all.equal-methods                       html  
    atomicVector-class                      html  
    band                                    html  
    bandSparse                              html  
    bdiag                                   html  
    boolean-matprod                         html  
    cBind                                   html  
    chol                                    html  
    chol2inv-methods                        html  
    colSums                                 html  
    compMatrix-class                        html  
    condest                                 html  
    dMatrix-class                           html  
    ddenseMatrix-class                      html  
    ddiMatrix-class                         html  
    denseMatrix-class                       html  
    dgCMatrix-class                         html  
    dgRMatrix-class                         html  
    dgTMatrix-class                         html  
    dgeMatrix-class                         html  
    diagU2N                                 html  
    diagonalMatrix-class                    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-def                     html  
    dtpMatrix-class                         html  
    dtrMatrix-class                         html  
    expand                                  html  
    expm                                    html  
    externalFormats                         html  
    facmul                                  html  
    forceSymmetric                          html  
    formatSparseM                           html  
    generalMatrix-class                     html  
    graph2T                                 html  
    image-methods                           html  
    indMatrix-class                         html  
    index-class                             html  
    invPerm                                 html  
    is.na-methods                           html  
    is.null.DN                              html  
    isSymmetric-methods                     html  
    isTriangular                            html  
    kronecker-methods                       html  
    ldenseMatrix-class                      html  
    ldiMatrix-class                         html  
    lgeMatrix-class                         html  
    lsparseMatrix-classes                   html  
    lsyMatrix-class                         html  
    ltrMatrix-class                         html  
    lu                                      html  
    mat2triplet                             html  
    matrix-products                         html  
    nMatrix-class                           html  
    ndenseMatrix-class                      html  
    nearPD                                  html  
    ngeMatrix-class                         html  
    nnzero                                  html  
    norm                                    html  
    nsparseMatrix-classes                   html  
    nsyMatrix-class                         html  
    ntrMatrix-class                         html  
    number-class                            html  
    pMatrix-class                           html  
    packedMatrix-class                      html  
    printSpMatrix                           html  
    qr-methods                              html  
    rankMatrix                              html  
    rcond                                   html  
    rep2abI                                 html  
    replValue-class                         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  
    symmetricMatrix-class                   html  
    symmpart                                html  
    triangularMatrix-class                  html  
    uniqTsparse                             html  
    unpack                                  html  
    unpackedMatrix-class                    html  
    unused-classes                          html  
    updown                                  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
make[3]: Entering directory '/tmp/RtmpmBELf2/R.INSTALL72d4d64586849/nlme/src'
gfortran -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c corStruct.c -o corStruct.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c gnls.c -o gnls.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c matrix.c -o matrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c nlOptimizer.c -o nlOptimizer.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c nlme.c -o nlme.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c nlmefit.c -o nlmefit.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pdMat.c -o pdMat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fvisibility=hidden -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pythag.c -o pythag.o
gfortran -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpmBELf2/R.INSTALL72d4d64586849/nlme/src'
installing to /builddir/build/BUILD/R-4.2.2/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
    ACF                                     html  
    ACF.gls                                 html  
    ACF.lme                                 html  
    Alfalfa                                 html  
    Assay                                   html  
    BodyWeight                              html  
    Cefamandole                             html  
    Coef                                    html  
    Covariate                               html  
    Covariate.varFunc                       html  
    Dialyzer                                html  
    Dim                                     html  
    Dim.corSpatial                          html  
    Dim.corStruct                           html  
    Dim.pdMat                               html  
    Earthquake                              html  
    Extract.pdMat                           html  
    Fatigue                                 html  
    Gasoline                                html  
    Glucose                                 html  
    Glucose2                                html  
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    solve.pdMat                             html  
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    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
make[3]: Entering directory '/tmp/RtmpigWTJO/R.INSTALL72d9753a9372c/survival/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agexact.c -o agexact.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agfit4.c -o agfit4.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agfit5.c -o agfit5.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agmart.c -o agmart.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agmart3.c -o agmart3.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agscore2.c -o agscore2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agsurv3.c -o agsurv3.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agsurv4.c -o agsurv4.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c agsurv5.c -o agsurv5.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cdecomp.c -o cdecomp.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c chinv2.c -o chinv2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c chinv3.c -o chinv3.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cholesky2.c -o cholesky2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cholesky3.c -o cholesky3.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cholesky5.c -o cholesky5.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c chsolve2.c -o chsolve2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c chsolve3.c -o chsolve3.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c chsolve5.c -o chsolve5.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c collapse.c -o collapse.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c concordance1.c -o concordance1.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c concordance3.c -o concordance3.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c concordance5.c -o concordance5.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c cox_Rcallback.c -o cox_Rcallback.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxcount1.c -o coxcount1.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxdetail.c -o coxdetail.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxexact.c -o coxexact.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxfit5.c -o coxfit5.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxfit6.c -o coxfit6.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxmart.c -o coxmart.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxmart2.c -o coxmart2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxph_wtest.c -o coxph_wtest.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxsafe.c -o coxsafe.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxscho.c -o coxscho.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxscore2.c -o coxscore2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxsurv1.c -o coxsurv1.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxsurv2.c -o coxsurv2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dmatrix.c -o dmatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c doloop.c -o doloop.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c finegray.c -o finegray.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c gchol.c -o gchol.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c multicheck.c -o multicheck.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c norisk.c -o norisk.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pyears1.c -o pyears1.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pyears2.c -o pyears2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pyears3b.c -o pyears3b.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pystep.c -o pystep.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survConcordance.c -o survConcordance.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survdiff2.c -o survdiff2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survfit4.c -o survfit4.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survfitci.c -o survfitci.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survfitkm.c -o survfitkm.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survfitresid.c -o survfitresid.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survpenal.c -o survpenal.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survreg6.c -o survreg6.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survreg7.c -o survreg7.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survregc1.c -o survregc1.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survregc2.c -o survregc2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c survsplit.c -o survsplit.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c tmerge.c -o tmerge.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c zph1.c -o zph1.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c zph2.c -o zph2.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o survival.so agexact.o agfit4.o agfit5.o agmart.o agmart3.o agscore2.o agsurv3.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 dmatrix.o doloop.o finegray.o gchol.o init.o multicheck.o norisk.o pyears1.o pyears2.o pyears3b.o pystep.o survConcordance.o survdiff2.o survfit4.o survfitci.o survfitkm.o survfitresid.o survpenal.o survreg6.o survreg7.o survregc1.o survregc2.o survsplit.o tmerge.o zph1.o zph2.o -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpigWTJO/R.INSTALL72d9753a9372c/survival/src'
installing to /builddir/build/BUILD/R-4.2.2/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  
    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  
    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  
    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
make[3]: Entering directory '/tmp/RtmpYTyMAO/R.INSTALL72eb23461a104/cluster/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c clara.c -o clara.o
gfortran -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c fanny.c -o fanny.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c mona.c -o mona.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pam.c -o pam.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sildist.c -o sildist.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c spannel.c -o spannel.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c twins.c -o twins.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpYTyMAO/R.INSTALL72eb23461a104/cluster/src'
installing to /builddir/build/BUILD/R-4.2.2/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
make[3]: Entering directory '/tmp/RtmpVBHA0T/R.INSTALL72f1b616f1f5b/foreign/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c R_systat.c -o R_systat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Rdbfread.c -o Rdbfread.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c Rdbfwrite.c -o Rdbfwrite.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c SASxport.c -o SASxport.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c avl.c -o avl.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c dbfopen.c -o dbfopen.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c file-handle.c -o file-handle.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c format.c -o format.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c minitab.c -o minitab.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pfm-read.c -o pfm-read.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sfm-read.c -o sfm-read.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c spss.c -o spss.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c stataread.c -o stataread.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpVBHA0T/R.INSTALL72f1b616f1f5b/foreign/src'
installing to /builddir/build/BUILD/R-4.2.2/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
make[3]: Entering directory '/tmp/RtmpqNIeHG/R.INSTALL72f6d5616e4b/KernSmooth/src'
gfortran -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gfortran -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -fno-optimize-sibling-calls  -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -lopenblaso -lgfortran -lm -lgfortran -lm -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpqNIeHG/R.INSTALL72f6d5616e4b/KernSmooth/src'
installing to /builddir/build/BUILD/R-4.2.2/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
make[3]: Entering directory '/tmp/RtmpSECjU2/R.INSTALL72fb9653c80f4/rpart/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c anova.c -o anova.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c anovapred.c -o anovapred.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c branch.c -o branch.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c bsplit.c -o bsplit.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c choose_surg.c -o choose_surg.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c fix_cp.c -o fix_cp.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c free_tree.c -o free_tree.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c gini.c -o gini.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c graycode.c -o graycode.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c insert_split.c -o insert_split.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c make_cp_list.c -o make_cp_list.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c make_cp_table.c -o make_cp_table.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c mysort.c -o mysort.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c nodesplit.c -o nodesplit.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c partition.c -o partition.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c poisson.c -o poisson.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pred_rpart.c -o pred_rpart.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c print_tree.c -o print_tree.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rpart.c -o rpart.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rpart_callback.c -o rpart_callback.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rpartexp.c -o rpartexp.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rpartexp2.c -o rpartexp2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rpcountup.c -o rpcountup.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rpmatrix.c -o rpmatrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rundown.c -o rundown.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c rundown2.c -o rundown2.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c surrogate.c -o surrogate.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c usersplit.c -o usersplit.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c xpred.c -o xpred.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c xval.c -o xval.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpSECjU2/R.INSTALL72fb9653c80f4/rpart/src'
installing to /builddir/build/BUILD/R-4.2.2/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
make[3]: Entering directory '/tmp/RtmpNcdgz4/R.INSTALL7303e17c1c1bc/class/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c class.c -o class.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o class.so class.o -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpNcdgz4/R.INSTALL7303e17c1c1bc/class/src'
installing to /builddir/build/BUILD/R-4.2.2/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
make[3]: Entering directory '/tmp/Rtmp9mZ8dI/R.INSTALL730699c5eb49/nnet/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c nnet.c -o nnet.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o nnet.so nnet.o -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/Rtmp9mZ8dI/R.INSTALL730699c5eb49/nnet/src'
installing to /builddir/build/BUILD/R-4.2.2/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
make[3]: Entering directory '/tmp/RtmpMN4Eaj/R.INSTALL7309418737700/spatial/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c krc.c -o krc.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c pps.c -o pps.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o spatial.so init.o krc.o pps.o -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpMN4Eaj/R.INSTALL7309418737700/spatial/src'
installing to /builddir/build/BUILD/R-4.2.2/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
make[3]: Entering directory '/tmp/RtmpdSDKPv/R.INSTALL730c5391b7af9/mgcv/src'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c coxph.c -o coxph.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c davies.c -o davies.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c discrete.c -o discrete.o
discrete.c: In function 'XWXijspace':
discrete.c:1074:11: warning: unused variable 'kk' [-Wunused-variable]
     jm,im,kk,ddtj,
           ^~
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c gdi.c -o gdi.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c init.c -o init.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c magic.c -o magic.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c mat.c -o mat.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c matrix.c -o matrix.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c mgcv.c -o mgcv.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c misc.c -o misc.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c mvn.c -o mvn.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c ncv.c -o ncv.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c qp.c -o qp.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c soap.c -o soap.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sparse-smooth.c -o sparse-smooth.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c sparse.c -o sparse.o
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include  -fopenmp -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c tprs.c -o tprs.o
gcc -shared -L/builddir/build/BUILD/R-4.2.2/lib -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -lopenblaso -lopenblaso -lgfortran -lm -fopenmp -L/builddir/build/BUILD/R-4.2.2/lib -lR
make[3]: Leaving directory '/tmp/RtmpdSDKPv/R.INSTALL730c5391b7af9/mgcv/src'
installing to /builddir/build/BUILD/R-4.2.2/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  
    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  
    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-4.2.2/src/library/Recommended'
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/library/Recommended'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/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-4.2.2/src/library'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2'
configuring Java ...
Java interpreter : /usr/bin/java
Java version     : 1.8.0_352
Java home path   : /usr/lib/jvm/java-1.8.0-openjdk-1.8.0.352.b08-2.el8_6.aarch64/jre
Java compiler    : not present
Java headers gen.: 
Java archive tool: 
trying to compile and link a JNI program 
detected JNI cpp flags    : 
detected JNI linker flags : -L$(JAVA_HOME)/lib/aarch64/server -ljvm
make[2]: Entering directory '/tmp/Rjavareconf.i0hux2'
gcc -I"/builddir/build/BUILD/R-4.2.2/include" -DNDEBUG   -I/usr/local/include   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -c conftest.c -o conftest.o
conftest.c:1:10: fatal error: jni.h: No such file or directory
 #include <jni.h>
          ^~~~~~~
compilation terminated.
make[2]: Leaving directory '/tmp/Rjavareconf.i0hux2'
make[2]: *** [/builddir/build/BUILD/R-4.2.2/etc/Makeconf:169: conftest.o] Error 1
Unable to compile a JNI program
JAVA_HOME        : /usr/lib/jvm/java-1.8.0-openjdk-1.8.0.352.b08-2.el8_6.aarch64/jre
Java library path: 
JNI cpp flags    : 
JNI linker flags : 
Updating Java configuration in /builddir/build/BUILD/R-4.2.2
Done.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2'
+ cd src/nmath/standalone
+ make
(cd ../../include; make Rmath.h)
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/include'
make[1]: 'Rmath.h' is up to date.
make[1]: Leaving directory '/builddir/build/BUILD/R-4.2.2/src/include'
Copying source files
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/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-4.2.2/src/nmath/standalone'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/nmath/standalone'
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE    -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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-4.2.2/src/nmath/standalone'
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/nmath/standalone'
gcc -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE   -fpic  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -c std_unif.c -o std_unif.lo
gcc -shared -fopenmp -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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
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[][][]\T1/pcr/m/n/10 R.version[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 
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", 1:10, "}:"))[] 
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Underfull \hbox (badness 1199) in paragraph at lines 4749--4755
[]\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
[72] [73]
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 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna
mes (default)[] 
[74] [75] [76] [77]
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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
[78] [79] [80] [81] [82] [83]
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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",
[84] [85] [86] [87] [88] [89] [90] [91] [92]
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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 : / /
[93] [94] [95]
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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_)))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6384--6384
 []\T1/pcr/m/n/9 showC(NpNA)# but not always is {shows  \TS1/pcr/m/n/9 '\T1/pcr
/m/n/9 (R = NaN, I = NA)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 on some platforms}[] 
[96] [97]
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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
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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
[98]
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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
[99] [100]
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 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e
ncoding"))[] 
[101]
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[]\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de
fault", "internal",
[102] [103]
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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 ,
[104] [105] [106]
Underfull \hbox (badness 10000) in paragraph at lines 7234--7236
[]\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
Underfull \hbox (badness 6592) in paragraph at lines 7276--7283
\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 7276--7283
[]\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-
[107] [108]
Underfull \vbox (badness 10000) has occurred while \output is active [109]
Underfull \vbox (badness 10000) has occurred while \output is active [110]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7480--7480
 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE"))
; close(con)[] 
[111] [112] [113] [114]
Underfull \hbox (badness 10000) in paragraph at lines 7814--7816
[]\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th
e call to
[115] [116] [117]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7973--7973
 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org")   ## this redirect
s to https://[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 7975--7975
 []\T1/pcr/m/n/9 ## curlGetHeaders("ftp://cran.r-project.org") ## ftp::// suppo
rt is vanishing[] 
[118] [119] [120] [121]
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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)[] 
[122]
Underfull \hbox (badness 10000) in paragraph at lines 8322--8332
[]\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 8322--8332
[][][]\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
[123] [124] [125]
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 []                 \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l
ength.out = 3),[] 
[126] [127] [128] [129]
Underfull \hbox (badness 10000) in paragraph at lines 8842--8854
\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
[130] [131] [132] [133] [134] [135]
Underfull \hbox (badness 10000) in paragraph at lines 9291--9295
[]\T1/pcr/m/n/10 .Defunct []\T1/ptm/m/n/10 is called from de-funct func-tions. 
Func-tions should be listed in
[136] [137]
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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})[] 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 9412--9412
 []        \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"),[] 
[138] [139]
Underfull \hbox (badness 5403) in paragraph at lines 9544--9546
[]\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
Underfull \hbox (badness 6063) in paragraph at lines 9563--9565
[]\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
[140] [141] [142]
Underfull \hbox (badness 1603) in paragraph at lines 9794--9797
[]\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
[143] [144] [145] [146] [147] [148] [149] [150] [151]
Underfull \hbox (badness 1917) in paragraph at lines 10410--10415
[]\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
[152]
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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 10466--10466
 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling
 on both levels[] 
[153] [154]
Underfull \hbox (badness 1168) in paragraph at lines 10568--10573
[]\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
[155]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 10670--10670
 []\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(...))))[] 
[156] [157]
Underfull \hbox (badness 2828) in paragraph at lines 10791--10796
[][][]$\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 10791--10796
\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 10791--10796
\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 :
Overfull \hbox (42.78088pt too wide) in paragraph at lines 10822--10822
 []     \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA
ttributes"))[] 
[158]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 10896--10896
 []\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, ..[] 
[159] [160]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 11044--11044
 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon
th.abb[5:9])) 
[161] [162] [163]
Underfull \hbox (badness 6396) in paragraph at lines 11242--11250
[]\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 11251--11253
[]\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len
t to but faster than
[164] [165] [166]
Underfull \hbox (badness 10000) in paragraph at lines 11468--11471
[]\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
[167] [168] [169] [170] [171] [172]
Underfull \hbox (badness 2744) in paragraph at lines 11904--11906
[]\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
[173]
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 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12
52 loc.) | ....[] 
[174] [175] [176]
Underfull \hbox (badness 5288) in paragraph at lines 12179--12181
[]\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
[177]
Underfull \hbox (badness 10000) in paragraph at lines 12246--12249
[]\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 12264--12266
[]\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for
[178] [179] [180] [181]
Underfull \hbox (badness 10000) in paragraph at lines 12514--12516
[]\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 12557--12559
[]\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
[182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13375--13375
 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes.   Could provide 
a constructor[] 
[194] [195] [196] [197] [198] [199] [200] [201] [202] [203]
Underfull \hbox (badness 2253) in paragraph at lines 14100--14102
[]\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
[204] [205]
Underfull \hbox (badness 2573) in paragraph at lines 14268--14270
[]\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 =
[206] [207]
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[]\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See
[208] [209]
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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 14559--14562
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][
] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
Overfull \hbox (47.58038pt too wide) in paragraph at lines 14580--14580
 []                     \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B 
as it exists already[] 
[210]
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 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode
 = "0777")[] 
[211]
Underfull \hbox (badness 10000) in paragraph at lines 14702--14705
[][][]\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 14712--14712
 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu
rsive = TRUE)[] 
[212]
Underfull \hbox (badness 10000) in paragraph at lines 14778--14781
[]\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:[] 
[213]
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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 14856--14860
[]\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,
[214] [215] [216]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15020--15020
 []       \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING) 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15021--15021
 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING)[] 
[217] [218] [219] [220]
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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 15266--15266
 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions.  Use it in co
mbination with[] 
[221]
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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
[222]
Underfull \hbox (badness 6944) in paragraph at lines 15449--15452
[][][]\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 ,
[223]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15474--15474
 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1
0,100,1000),[] 
[224] [225]
Underfull \hbox (badness 10000) in paragraph at lines 15612--15614
[]\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 15632--15632
 []          \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = 
decimal.mark,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 15638--15638
 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric
(x)),[] 
Underfull \hbox (badness 2790) in paragraph at lines 15645--15648
[]\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
[226]
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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
[227]
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[]\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(*,
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[]\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 15790--15798
[]\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
[228] [229]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15898--15898
 []\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[] 
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[231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241]
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 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil
l a DLLInfoList[] 
[242] [243]
Underfull \hbox (badness 2418) in paragraph at lines 16863--16867
\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 ,
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[]\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
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[][][]\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 ,
[244] [245]
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[]\T1/ptm/m/n/10 The spe-cial case []\T1/pcr/m/n/10 bindtextdomain(NULL) []\T1/
ptm/m/n/10 calls C level
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[]\T1/pcr/m/n/10 textdomain(textdomain(NULL)) []\T1/ptm/m/n/10 for the pur-pose
 of flush-ing (i.e., emp-ty-ing) the
[246]
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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:[] 
[248] [249]
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 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F
ALSE, 
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[]\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][]
[] (or char-ac-ter string for
[250] [251] [252] [253]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17575--17575
 []  \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around 
"checking hack"[] 
[254]
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 []\T1/pcr/m/n/9 name.rex <- "(?<first>[[:upper:]][[:lower:]]+) (?<last>[[:uppe
r:]][[:lower:]]+)"[] 
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Overfull \hbox (0.78088pt too wide) in paragraph at lines 17660--17660
 []        \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F
ALSE)[] 
[256] [257] [258] [259]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18033--18033
 []\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))) 
[260]
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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"))[] 
[261] [262] [263]
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 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F
ALSE) 
[264] [265] [266] [267] [268]
Underfull \hbox (badness 1163) in paragraph at lines 18653--18655
[]\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 /
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 []\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.[] 
[269]
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 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se
t = TRUE, 
[270]
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 []              \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,[] 
[271]
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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[] 
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 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share
 an environment:[] 
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 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi
ng "srcref" :[] 
[272] [273]
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 []\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):[] 
[274] [275] [276]
Underfull \hbox (badness 10000) in paragraph at lines 19194--19196
[]\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
[277] [278] [279] [280] [281]
Underfull \hbox (badness 10000) in paragraph at lines 19532--19538
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[]\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac
le . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[282] [283] [284]
Underfull \hbox (badness 4699) in paragraph at lines 19777--19780
[]\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty
pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\
T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 ,
[285] [286]
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 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = "
GMT")[] 
[287] [288] [289]
Underfull \hbox (badness 4739) in paragraph at lines 20040--20042
[]\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere
d, see
[290]
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 []\T1/pcr/m/n/9 isSymmetric(D3)                         # FALSE (as row and co
lumn names differ)[] 
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 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE  (as names are 
not checked)[] 
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Underfull \hbox (badness 1975) in paragraph at lines 20709--20712
[]\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p
hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to
[300] [301] [302] [303] [304] [305]
Underfull \hbox (badness 1077) in paragraph at lines 21124--21129
[]\T1/ptm/m/n/10 In late 2017 a []\T1/pcr/m/n/10 libcurl []\T1/ptm/m/n/10 in-st
al-la-tion was seen di-vided into two li-braries, []\T1/pcr/m/n/10 libcurl []\T
1/ptm/m/n/10 and
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[][][]$\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 /
[306]
Underfull \hbox (badness 1112) in paragraph at lines 21212--21221
[]\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 ,
[307]
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[]\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 21272--21275
\T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It 
may be opened by
[308] [309]
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[]\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use
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[][][]\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
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[]\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-
[310] [311]
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[][][]\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 ,
[312]
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[]\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
[313]
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[]\T1/ptm/m/n/10 A small num-ber of files (some of the API header files) are di
s-tributed un-der the
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\T1/ptm/m/n/10 LESSER GNU GEN-ERAL PUB-LIC LI-CENSE, ver-sion 2.1 or later. A c
opy of
Underfull \hbox (badness 5133) in paragraph at lines 21712--21717
\T1/ptm/m/n/10 this li-cense is in file `\T1/pcr/m/n/10 $R_SHARE_DIR/licenses/L
GPL-2.1\T1/ptm/m/n/10 ' and can be viewed
Underfull \hbox (badness 10000) in paragraph at lines 21712--21717
\T1/ptm/m/n/10 by []\T1/pcr/m/n/10 RShowDoc("LGPL-2.1")[]\T1/ptm/m/n/10 . Ver-s
ion 3 of the li-cense can be dis-played by
[314] [315] [316]
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
[317]
Underfull \hbox (badness 3343) in paragraph at lines 21945--21949
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/
m/n/10 for many more file han-dling func-tions and
[318] [319]
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 []          \T1/pcr/m/n/9 identical(L$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))),[] 
[320] [321]
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 []\T1/pcr/m/n/9 ## This however annihilates all objects in .GlobalEnv with the
 same names ![] 
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 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w
/ same name in .GlobalEnv[] 
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[]\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways 
be sup-
[322] [323]
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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
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 []\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 Sys.setenv("LANGUAGE" = "es") # set the language for error/war
ning messages[] 
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 [] \T1/pcr/m/n/9 sg <- matrix(unlist(strsplit(strsplit(Sys.getlocale(), sep)[[
1]], "=")), nrow=2)[] 
[324] [325]
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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
[326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] [337]
[338]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 23419--23419
 []\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 ))[] 
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 []\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)[] 
[339]
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 []\T1/pcr/m/n/9 match.arg(c("a", ""),  c("", NA, "bb", "abc"), several.ok=TRUE
) # |-->  "abc"[] 
[340]
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[]\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion 
(also known as a `clo-sure'):
[341] [342] [343]
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[]\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross\T1/ptm/m/n/10 products, [][]
[]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcross
prod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able.
[344] [345] [346] [347] [348] [349] [350] [351] [352]
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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
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\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 /
[353] [354]
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 []      \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y =
 all,[] 
[355] [356] [357] [358] [359] [360] [361] [362]
Underfull \hbox (badness 1448) in paragraph at lines 25014--25022
[]\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 =
[363]
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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
[364]
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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 25206--25212
\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,
[365] [366] [367]
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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",
[368] [369] [370]
Underfull \hbox (badness 6188) in paragraph at lines 25596--25599
[]\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
[371] [372] [373]
Underfull \hbox (badness 1521) in paragraph at lines 25781--25795
\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-
[374] [375] [376] [377]
Underfull \hbox (badness 2197) in paragraph at lines 26095--26099
[]\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
[378]
Underfull \hbox (badness 2846) in paragraph at lines 26109--26113
[]\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 26109--26113
\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
Overfull \hbox (12.78088pt too wide) in paragraph at lines 26151--26151
 []\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 26155--26155
 []              \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk
gs"))[] 
[379]
Underfull \hbox (badness 10000) in paragraph at lines 26204--26210
[]\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 26204--26210
[]\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 26217--26219
[]\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%
[380]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 26284--26284
 [] \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:[] 
[381] [382] [383]
Underfull \hbox (badness 8189) in paragraph at lines 26479--26485
[]\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[][][]
[384] [385] [386]
Underfull \hbox (badness 1694) in paragraph at lines 26704--26707
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor with suit-able nu-meric ver-sion strings
 (see `De-tails');
[387] [388] [389] [390]
Underfull \hbox (badness 1603) in paragraph at lines 26976--26978
[]\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a
re con-verted by
[391] [392]
Underfull \hbox (badness 1210) in paragraph at lines 27103--27111
[]\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-
[393] [394]
Underfull \hbox (badness 3271) in paragraph at lines 27323--27326
[]\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men
t vari-able
[395] [396]
Underfull \vbox (badness 3780) has occurred while \output is active [397]
[398]
Underfull \hbox (badness 3138) in paragraph at lines 27629--27635
[]\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 27629--27635
\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 27629--27635
\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 1194) in paragraph at lines 27642--27645
[]\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/pcr/m/n/10 create.post[
][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/pcr/m/n/10 bug.report[][][] []\T1/pt
m/m/n/10 and
Underfull \hbox (badness 1389) in paragraph at lines 27668--27670
[]\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na
l HTTP server, see
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[]\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
[399]
Underfull \hbox (badness 1009) in paragraph at lines 27728--27731
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 27744--27747
[]\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 27752--27758
\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 27752--27758
\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 27752--27758
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 27767--27774
[]\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][][]\T1/pcr/m/n/10 up
date.packages[][][][]\T1/ptm/m/n/10 . De-faults to
Underfull \hbox (badness 2384) in paragraph at lines 27767--27774
[]\T1/pcr/m/n/10 c(CRAN="@CRAN@")[]\T1/ptm/m/n/10 , a value that causes some ut
il-i-ties to prompt for a CRAN
Underfull \hbox (badness 2837) in paragraph at lines 27767--27774
\T1/ptm/m/n/10 mir-ror. To avoid this do set the CRAN mir-ror, by some-thing li
ke []\T1/pcr/m/n/10 local({r
Underfull \hbox (badness 10000) in paragraph at lines 27767--27774
\T1/pcr/m/n/10 <- getOption("repos"); r["CRAN"] <- "http://my.local.cran";
[400] [401] [402] [403] [404]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28115--28115
 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec,
 300X faster[] 
Underfull \hbox (badness 10000) in paragraph at lines 28128--28132
[]\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex.
y)] = FUN(X[arrayindex.x],
[405] [406]
Underfull \hbox (badness 1210) in paragraph at lines 28275--28278
[]\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,
[407] [408] [409] [410]
Underfull \hbox (badness 7133) in paragraph at lines 28557--28563
[][][]\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 28579--28579
 []\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 28591--28591
 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha
t you wanted[] 
[411]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 28604--28604
 []\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 more vectorized behaviour, i.e. zero-length recycling :
[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 28608--28608
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0=
TRUE) # -> character(0)[] 
[412] [413]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28791--28791
 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow()  # same as nrow(subset(mt
cars, cyl == 4))[] 
[414]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28806--28806
 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so 
is not evaluated[] 
Underfull \hbox (badness 1360) in paragraph at lines 28861--28865
[]\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 =
[415] [416] [417] [418] [419]
Underfull \hbox (badness 2277) in paragraph at lines 29173--29178
\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
[420] [421]
Underfull \hbox (badness 1533) in paragraph at lines 29289--29293
[]\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/pcr/m/n/10 `\T1/p
cr/m/n/10 name\TS1/pcr/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\T1
/pcr/m/n/10 get[][][](name, envir =
[422]
Underfull \hbox (badness 1796) in paragraph at lines 29357--29360
[]\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
[423] [424] [425]
Underfull \hbox (badness 10000) in paragraph at lines 29561--29564
[]\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
[426] [427] [428] [429] [430] [431] [432] [433] [434] [435]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 30256--30256
 []           \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))[] 
[436] [437] [438] [439] [440]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 30549--30549
 []\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 30560--30560
 []\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 30566--30566
 []\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)[] 
[441]
Underfull \hbox (badness 7415) in paragraph at lines 30662--30666
[]\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
[442]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 30683--30683
 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu
l bottom-right note[] 
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 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind =
 NULL)[] 
[443] [444]
Underfull \hbox (badness 3713) in paragraph at lines 30874--30885
[]\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
[445] [446]
Underfull \hbox (badness 1248) in paragraph at lines 31026--31033
\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 31026--31033
\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 /
[447]
Underfull \hbox (badness 1533) in paragraph at lines 31144--31147
[]\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
[448] [449] [450]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 31289--31289
 []     \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m
ax", "min"))[] 
Underfull \hbox (badness 1038) in paragraph at lines 31307--31318
[]\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
[451] [452]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 31451--31451
 []\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 31453--31453
 []\T1/pcr/m/n/9 rapply(X, deparse, control = "all") # passing extras. argument
 of deparse()[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 31454--31454
 []\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 31455--31455
 []\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 31456--31456
 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character",                      h
ow = "unlist")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 31463--31463
 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
[453] [454] [455] [456] [457]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 31771--31771
 []\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 31783--31783
 []\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 31784--31784
 []\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 [458]
[459]
Underfull \hbox (badness 4048) in paragraph at lines 31879--31884
[]\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 31879--31884
\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 31879--31884
\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 ,
[460] [461] [462] [463] [464] [465] [466] [467]
Underfull \hbox (badness 2080) in paragraph at lines 32417--32427
[]\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 32451--32451
 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene
d as needed.[] 
[468] [469] [470] [471] [472] [473] [474]
Underfull \hbox (badness 7558) in paragraph at lines 32971--32975
[]\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 32981--32983
[]\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
[475]
Underfull \hbox (badness 10000) in paragraph at lines 32992--32994
[]\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 32995--32999
[]\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 .
[476] [477] [478] [479] [480]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 33366--33366
 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3)         # length 24, 3 complete 
replications[] 
[481]
Underfull \hbox (badness 10000) in paragraph at lines 33437--33441
[][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] []
[]NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple
x_[][][]
[482] [483] [484]
Underfull \hbox (badness 2302) in paragraph at lines 33663--33668
[]\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 33663--33668
\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 -
[485] [486]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 33796--33796
 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"))[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 33799--33799
 []      \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"),[] 
[487] [488] [489] [490] [491] [492] [493]
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 []           \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) 
&& size <= n/2))[] 
[494] [495] [496] [497] [498] [499] [500]
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 []     \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul =
 FALSE)[] 
[501]
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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
[502] [503]
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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") 
[504] [505] [506] [507]
Underfull \hbox (badness 4752) in paragraph at lines 35241--35244
[]\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 35245--35251
[]\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
[508] [509] [510] [511] [512] [513] [514] [515] [516] [517]
Underfull \hbox (badness 10000) in paragraph at lines 35915--35926
[]\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
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\T1/ptm/m/n/10 the shell. It may de-pend on the com-piler used: Mi-crosoft's ru
les for the C run-
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\T1/ptm/m/n/10 time are given at [][]$\T1/pcr/m/n/10 https : / / docs . microso
ft . com / en-[]us / cpp / c-[]language /
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\T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][
]\T1/ptm/m/n/10 . It may de-pend on the
[518] [519] [520] [521] [522] [523] [524] [525]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 36455--36455
 []         \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index
.return = FALSE)[] 
[526] [527] [528]
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 []              \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length 
= Inf,[] 
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 []              \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes"
, "keepNA"),[] 
[529]
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[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/
pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T
1/ptm/m/n/10 , see also
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[][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \
T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to
[530] [531]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 36863--36863
 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments
 should print:)[] 
[532] [533] [534] [535] [536]
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 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m
/n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] 
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 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is
 being added[] 
[537] [538] [539]
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[][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919
799 / functions /
[540] [541] [542]
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 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un
known") 
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 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile =
 FALSE)[] 
[543] [544] [545] [546] [547]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 38005--38005
 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS
E, nowadays often three 
[548]
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[]\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
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\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 38101--38111
\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 38101--38111
\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
[549]
Underfull \hbox (badness 10000) in paragraph at lines 38157--38163
[]\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 '
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\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,
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\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
Underfull \hbox (badness 1460) in paragraph at lines 38172--38179
[]\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
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\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 38172--38179
\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
[550]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 38234--38234
 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba
ckslashes in[] 
[551] [552] [553]
Underfull \hbox (badness 1484) in paragraph at lines 38407--38411
[]\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
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 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e
xprs = exprs))) 
[554] [555] [556] [557] [558] [559] [560]
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 []\T1/pcr/m/n/9 (fF <- format(.POSIXct(notF))) # was all  NA, now the last is 
still NA (not "NA")[] 
[561] [562]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 39064--39064
 []            \T1/pcr/m/n/10 add the string to the left of the match to the ou
tput.[] 
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Overfull \hbox (6.78088pt too wide) in paragraph at lines 39314--39314
 []        \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p
refix)[] 
[566]
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 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll
apse = "\n")[] 
[567] [568] [569] [570] [571] [572] [573]
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 []\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, ....[] 
[574]
Underfull \hbox (badness 10000) in paragraph at lines 39859--39866
[]\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 39859--39866
[]\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 ).
[575]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 39912--39912
 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau
lt precision 
[576] [577] [578] [579]
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 []    \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw
ise: last"),"\n")[] 
[580] [581] [582]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 40389--40389
 []\T1/pcr/m/n/9 ## whether HOST is set will be shell-dependent e.g. Solaris\TS
1/pcr/m/n/9 ' \T1/pcr/m/n/9 csh does not. 
[583]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 40427--40427
 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, 
macOS, FreeBSD:[] 
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[]\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 40457--40463
\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.
Underfull \hbox (badness 4792) in paragraph at lines 40476--40481
[]\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 40476--40481
[]\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
[584] [585] [586] [587]
Underfull \hbox (badness 10000) in paragraph at lines 40764--40768
[]\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
[588]
Underfull \hbox (badness 1584) in paragraph at lines 40779--40782
[]\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
[589] [590]
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 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths
), keepNA=TRUE))[] 
[591]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 40998--40998
 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123))  # \TS1/pcr/
m/n/9 `\T1/pcr/m/n/9 A+C\TS1/pcr/m/n/9 ` \T1/pcr/m/n/9 could also be used 
[592] [593]
Underfull \hbox (badness 1082) in paragraph at lines 41143--41146
[]\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
[594]
Underfull \hbox (badness 10000) in paragraph at lines 41170--41172
[][][]\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
[595] [596]
Underfull \hbox (badness 1038) in paragraph at lines 41336--41339
[]\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
[597] [598] [599] [600] [601]
Underfull \hbox (badness 1442) in paragraph at lines 41701--41705
\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 =
[602] [603] [604] [605]
Underfull \hbox (badness 4096) in paragraph at lines 41955--41958
[]\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 ,
[606]
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[]\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) >
[607] [608] [609]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 42223--42223
 []            \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1"
, "2"), c("A", "B")))),[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 42225--42225
 []            \T1/pcr/m/n/9 array(list(\TS1/pcr/m/n/9 `\T1/pcr/m/n/9 2\TS1/pcr
/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 42227--42227
 []                 \TS1/pcr/m/n/9 `\T1/pcr/m/n/9 4\TS1/pcr/m/n/9 ` \T1/pcr/m/n
/9 = NULL, \TS1/pcr/m/n/9 `\T1/pcr/m/n/9 5\TS1/pcr/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 42240--42242
[]\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
[610]
Underfull \hbox (badness 10000) in paragraph at lines 42320--42323
[][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [
][]$https : / / developer .
[611] [612]
Underfull \hbox (badness 3872) in paragraph at lines 42438--42441
[]\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call
-backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer .
[613]
Underfull \hbox (badness 5475) in paragraph at lines 42504--42508
[][][]\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 \ [][]$\T1/pcr/m/n/10 https : / /
[614] [615] [616] [617] [618] [619]
Underfull \hbox (badness 1655) in paragraph at lines 42927--42934
\T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[]
\T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1
/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ',
Underfull \hbox (badness 2253) in paragraph at lines 42935--42940
[]\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se
e the ex-am-ples for typ-i-cal cases. It may
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\T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , 
some-thing like `[]\T1/pcr/m/n/10 "2020a"[]\T1/ptm/m/n/10 '. (It does on sys-te
ms us-ing
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[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-
turns the time-zone names known to the cur-rently se-
Underfull \hbox (badness 3954) in paragraph at lines 42985--42994
\T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t
he file sys-tem varies,
[620]
Underfull \hbox (badness 1082) in paragraph at lines 42995--43007
[]\T1/ptm/m/n/10 is used by de-fault: file `\T1/pcr/m/n/10 VERSION\T1/ptm/m/n/1
0 ' in that di-rec-tory states the ver-sion. That op-tion is
[621]
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\T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de
r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 /
usr/local/etc\T1/ptm/m/n/10 ' or
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[]\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym
-link tar-get name of
Underfull \hbox (badness 3460) in paragraph at lines 43143--43146
[][][]$\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 43147--43149
[][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h
tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol-
[622]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 43156--43156
 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET",
 "Eire", ..., but[] 
[623] [624] [625] [626]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 43499--43499
 []\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 43501--43501
 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL)  ##--> showing the ncp
 root finding:[] 
[627]
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 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
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 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
[629] [630] [631] [632]
Underfull \hbox (badness 6542) in paragraph at lines 43878--43880
[]\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
[633]
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 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[
 \t\r\n]") 
[634]
Underfull \hbox (badness 1708) in paragraph at lines 44065--44073
[]\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 44065--44073
\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
[635]
Underfull \hbox (badness 4859) in paragraph at lines 44105--44110
[][][]\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;
[636]
Underfull \hbox (badness 3895) in paragraph at lines 44167--44179
[]\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 44167--44179
\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 ,
[637] [638] [639] [640] [641]
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 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp
ression(1+x))[] 
[642] [643] [644] [645] [646] [647]
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 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local
es and fonts[] 
[648]
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 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little-
endian platforms[] 
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[][][]\T1/pcr/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.acc
ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.append[][][][]\T1/ptm/m/n
/10 , [][][]\T1/pcr/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.exists[][][][]
\T1/ptm/m/n/10 ,
[649]
Underfull \hbox (badness 3861) in paragraph at lines 45043--45048
[][][]\T1/pcr/m/n/10 dir.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 di
r.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 normalizePath[][][][]\T1/
ptm/m/n/10 , [][][]\T1/pcr/m/n/10 path.expand[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 pipe[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Sys.glob[][][][]\
T1/ptm/m/n/10 ,
[650]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 45136--45136
 []\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[] 
[651]
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[]\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 ),
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[]\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
[652] [653] [654]
Underfull \hbox (badness 3668) in paragraph at lines 45432--45434
[]\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di-
ately, even if
[655]
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 []      \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes
sages:\n"),[] 
[656] [657]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 45613--45613
 []\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 45621--45621
 []\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 ...[] 
[658]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 45715--45715
 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w
eek, yr}), ... :[] 
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 []\T1/pcr/m/n/9 dt2df <- function(dt, dName = deparse(substitute(dt)), strings
AsFactors = FALSE) {[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 45720--45720
 []    \T1/pcr/m/n/9 DF <- as.data.frame(unclass(as.POSIXlt( dt )), stringsAsFa
ctors=stringsAsFactors)[] 
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 []\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}[] 
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 []\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[] 
[659]
Underfull \hbox (badness 10000) in paragraph at lines 45791--45796
[]\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 45791--45796
[]\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
[660] [661]
Underfull \hbox (badness 2818) in paragraph at lines 45887--45893
[]\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
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 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is
 at least one:[] 
[662] [663] [664] [665] [666] [667] [668]
Underfull \hbox (badness 2846) in paragraph at lines 46381--46385
[]\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
[669]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46421--46421
 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char
acter vector[] 
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[]\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
[670]) (./compiler-pkg.tex
Chapter 2.
[671]
Underfull \hbox (badness 2884) in paragraph at lines 106--120
[]\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-
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\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
[672] [673] [674]) (./datasets-pkg.tex
Chapter 3.
[675] [676] [677] [678] [679]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 301--301
 []  \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang
e", cex = 1.2,[] 
[680]
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 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi
ven = FALSE)[] 
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[682] [683] [684]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 617--617
 []           \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t
race = TRUE)[] 
[685]
Underfull \hbox (badness 4779) in paragraph at lines 704--707
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[686] [687]
Underfull \hbox (badness 4779) in paragraph at lines 837--840
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[688] [689] [690]
Underfull \hbox (badness 1097) in paragraph at lines 1037--1041
[]\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.
[691]
Underfull \hbox (badness 4779) in paragraph at lines 1152--1155
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[692] [693] [694] [695] [696]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1464--1464
 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption
 time (sec)")[] 
[697] [698]
Underfull \hbox (badness 10000) in paragraph at lines 1549--1552
[]\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 1549--1552
[]\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
[699] [700] [701]
Underfull \hbox (badness 4779) in paragraph at lines 1738--1741
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[702]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1832--1832
 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil
y = binomial())[] 
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 []  \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum),
 data = infert)[] 
[703] [704]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1956--1956
 []                                        \T1/pcr/m/n/9 sub(" W.",".Width", dn
i3[[2]])))),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1957--1957
 []    \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d
ni3[[3]]))))[] 
[705] [706] [707] [708]
Underfull \hbox (badness 4779) in paragraph at lines 2160--2163
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[709] [710] [711]
Overfull \vbox (4.29591pt too high) has occurred while \output is active
[712] [713] [714] [715] [716]
Underfull \hbox (badness 4779) in paragraph at lines 2725--2728
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[717]
Overfull \vbox (13.87083pt too high) has occurred while \output is active
[718]
Underfull \vbox (badness 2376) has occurred while \output is active [719]
[720]
Overfull \vbox (12.25539pt too high) has occurred while \output is active
[721] [722]
Overfull \vbox (17.12102pt too high) has occurred while \output is active
[723]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3154--3154
 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 
1.2, pch = ".")[] 
[724] [725] [726] [727] [728] [729] [730]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3611--3611
 []          \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t
he monthly one:[] 
[731] [732]
Underfull \hbox (badness 4779) in paragraph at lines 3759--3762
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[733]
Overfull \vbox (10.49593pt too high) has occurred while \output is active
[734]
Overfull \vbox (15.49593pt too high) has occurred while \output is active
[735]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3968--3968
 []       \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of
 supplement")[] 
Underfull \hbox (badness 10000) in paragraph at lines 4006--4008
[]\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 4006--4008
\T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma
n / sitephotos /
[736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747]
[748] [749]) (./grDevices-pkg.tex [750]
Chapter 4.
[751] [752] [753] [754]
Underfull \hbox (badness 4752) in paragraph at lines 298--303
[]\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
[755] [756] [757] [758]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 519--519
 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d
.pdf",[] 
[759] [760] [761] [762] [763] [764] [765] [766] [767] [768]
Underfull \hbox (badness 5175) in paragraph at lines 1192--1194
[]\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
[769] [770] [771]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 1363--1363
 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", 
scale.in = 255))[] 
[772] [773] [774]
Underfull \hbox (badness 3302) in paragraph at lines 1624--1628
[]\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")
[775] [776] [777] [778] [779]
Underfull \hbox (badness 1565) in paragraph at lines 1914--1919
[]\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 1914--1919
\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
[780]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 1997--1997
 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res 
= 72,[] 
[781]
Underfull \hbox (badness 1184) in paragraph at lines 2038--2048
[]\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-
Underfull \hbox (badness 2057) in paragraph at lines 2038--2048
[]\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 ,
[782]
Underfull \hbox (badness 10000) in paragraph at lines 2150--2152
[]\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the 
set-ting of
[783] [784] [785]
Underfull \hbox (badness 6758) in paragraph at lines 2329--2332
[]\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript
 doc-u-men-ta-tion) are
[786] [787]
Underfull \hbox (badness 2326) in paragraph at lines 2447--2457
[]\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
Underfull \hbox (badness 2318) in paragraph at lines 2447--2457
\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
Underfull \hbox (badness 2460) in paragraph at lines 2447--2457
\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
Underfull \hbox (badness 1221) in paragraph at lines 2447--2457
[]\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
[788]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 2550--2550
 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r"
, yaxs = "r") {[] 
[789] [790]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 2666--2666
 []\T1/pcr/m/n/10 gray.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re
v = FALSE) 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 2667--2667
 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re
v = FALSE)[] 
[791] [792] [793] [794]
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Underfull \vbox (badness 10000) has occurred while \output is active [795]
[796] [797] [798] [799]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 3273--3273
 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized
 = FALSE)[] 
[800]
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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))[] 
[801] [802] [803]
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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
[804]
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 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl
e = FALSE)[] 
[805]
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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 = 1:8, ylab =
 "", main=main)[] 
[806]
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 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE,
 fixup = TRUE) 
[807]
Underfull \hbox (badness 8170) in paragraph at lines 3787--3790
[]\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 ,
[808]
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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 .
[809]
Underfull \vbox (badness 10000) has occurred while \output is active [810]
Underfull \hbox (badness 5260) in paragraph at lines 4016--4019
[]\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
[811] [812] [813] [814] [815]
Underfull \hbox (badness 5939) in paragraph at lines 4349--4354
[]\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 ,
[816] [817] [818] [819] [820] [821] [822] [823]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 4869--4869
 []     \T1/pcr/m/n/10 compression = c("none", "rle", "lzw", "jpeg", "zip", "lz
w+p", "zip+p"),[] 
[824] [825]
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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
[826]
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 []\T1/pcr/m/n/9 ## Not run: dev.print(png, file = "myplot.png", width = 1024, 
height = 768)[] 
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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 []\T1/pcr/m/n/10 printf []\T1/ptm/m/n/10 for-mat such as
[827]
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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"
[828]
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[]\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East 
Asian lan-guages -- see
[829] [830] [831]
Underfull \hbox (badness 7344) in paragraph at lines 5494--5496
[]\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
[832] [833]
Underfull \hbox (badness 1552) in paragraph at lines 5632--5641
[]\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
Underfull \hbox (badness 4686) in paragraph at lines 5674--5680
[]\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
[834]
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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 /
[835] [836]
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 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r
eg-tests-1c.R[] 
[837]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 5915--5915
 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100
, ...)[] 
[838] [839]
Underfull \hbox (badness 10000) in paragraph at lines 6001--6003
[]\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
[840] [841] [842] [843] [844]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6368--6368
 []\T1/pcr/m/n/9 rgb((0:15)/15, green = 0, blue = 0, names = paste("red", 0:15,
 sep = "."))[] 
Underfull \hbox (badness 10000) in paragraph at lines 6382--6385
[]\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
[845] [846] [847] [848] [849] [850]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 6717--6717
 []\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,[] 
[851] [852] [853] [854]
Underfull \hbox (badness 10000) in paragraph at lines 6990--6995
[]\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
 ,
Underfull \hbox (badness 1803) in paragraph at lines 6990--6995
[]\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
[855]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 7096--7096
 []\T1/pcr/m/n/9 windows()  # make sure we have the right device type (availabl
e on Windows only)[] 
[856]
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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 : / /
Underfull \hbox (badness 2393) in paragraph at lines 7135--7138
\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)[] 
[857]
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[]\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used
. One of
[858]
Underfull \hbox (badness 10000) in paragraph at lines 7316--7318
[]\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ
K lan-guages and
[859]
Underfull \hbox (badness 10000) in paragraph at lines 7362--7369
[]\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
[860]
Underfull \hbox (badness 5607) in paragraph at lines 7446--7450
[]\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
[861]
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 []        \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height
 = 6, xpos = 0,[] 
[862] [863]
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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
 ,
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[]\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt
p : / / www . schmidt-[]web-[]berlin . de /
[864] [865] [866]
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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
[867] [868]) (./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 =
[869] [870] [871] [872] [873] [874] [875]
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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
[876] [877]
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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[] 
[878]
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[]\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 694--698
[][][]\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
[879] [880]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 770--770
 []\T1/pcr/m/n/9 ## 1e-01 1e+01 1e+03 1e+05 1e+07 1e+09 1e+11 ; since R 4.2.0: 
1e-2 1e0 1e2 .. 1e10[] 
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 []                 \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n
intLog = 5))[] 
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 []        \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = 
NULL, ...)[] 
[881] [882] [883]
Underfull \hbox (badness 10000) in paragraph at lines 966--970
[][][]\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.
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 []        \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 985--985
 []\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 987--987
 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur
vived, *)", color=TRUE)[] 
[884] [885] [886] [887]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1271--1271
 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. 
outside hinges"):[] 
[888] [889] [890]
Underfull \hbox (badness 2503) in paragraph at lines 1433--1442
\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 ,
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[]\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt
m/m/n/10 ),
[891] [892]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1542--1542
 []\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 1543--1543
 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main =    "plot(*, col.axi
s=..,main=..)")[] 
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 []\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 1550--1550
 []              \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl
ty = 1, outpch = NA)[] 
[893] [894] [895] [896] [897]
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[][][]\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
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 []\T1/pcr/m/n/9 contour(x, x, z, ylim = c(-6, 6), nlevels = 20, lty = 2, metho
d = "simple",[] 
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 []\T1/pcr/m/n/9 contour(z, levels=levs[-c(1,length(levs))], col = 1:5, lwd = 1
:3 *1.5, lty = 1:3)[] 
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 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
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 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
[898] [899]
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 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col
umns, 
[900] [901]
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 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given
.depth, rows = 1)[] 
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 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c(
TRUE, FALSE))[] 
[902] [903]
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 []\T1/pcr/m/n/10 dotchart(x, labels = NULL, groups = NULL, gdata = NULL, offse
t = 1/8, 
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 []         \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T
RUE, log = "",[] 
[904]
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[]\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
[905]
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 []               \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO
rRd", rev = TRUE),[] 
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\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
[906]
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[][][]\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
[907] [908] [909] [910]
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 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks:  par(lab = c
(mx, my, 7))[] 
[911]
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 []     \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = 
NULL,[] 
[912] [913]
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\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
[914]
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 []\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 :[] 
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 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a 
suggestion only"[] 
[915]
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[][][]\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
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 []\T1/pcr/m/n/9 ## The default fuzz in hist.default()  "kills" this, with a "w
rong" message:[] 
[916] [917] [918]
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 []\T1/pcr/m/n/9 identifyPch <- function(x, y = NULL, n = length(x), plot = FAL
SE, pch = 19, ...)[] 
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 []        \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel)
, n = 1, plot = plot, ...)[] 
[919] [920]
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[]\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")$rasterImage []\T1/pt
m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is
[921] [922] [923]
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 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 
0, horiz = TRUE)[] 
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 []       \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = 
par("fg"),[] 
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 []       \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace =
 FALSE,[] 
[924] [925] [926]
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 []  \T1/pcr/m/n/9 text  (1, y.leg[i] - 0.1, paste("cex=", formatC(cexv[i])), c
ex = 0.8, adj = 0)[] 
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 []  \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce
x = cexv[i])[] 
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 []       \T1/pcr/m/n/9 cex = 1+(-1:2)/8, trace = TRUE)# trace: show computed l
engths & coords[] 
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 []  \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)",[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3844--3844
 []                      \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj
 = c(0, 0.3))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [927]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3870--3870
 []\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=)[] 
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 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow
(VADeaths)))[] 
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 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7
, lty = 1:7,[] 
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 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c
ol = "blue")[] 
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 []\T1/pcr/m/n/9 legend("topleft",     "(x,y)", pch=1, title= "topleft, inset =
 .05", inset = .05)[] 
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 []\T1/pcr/m/n/9 legend("topright",    "(x,y)", pch=1, title= "topright, inset 
= .02",inset = .02)[] 
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 []   \T1/pcr/m/n/9 plot(1, type = "n", axes = FALSE, ann = FALSE); title(paste
("text.font =",i))[] 
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 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized"
, "columns."),[] 
[929]
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[][][]\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%
[930]
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 []        \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb
ose"))[] 
[931] [932] [933]
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 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le
ngth.out = 100))[] 
[934]
Underfull \hbox (badness 3930) in paragraph at lines 4333--4335
[]\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
[935] [936] [937] [938] [939]
Underfull \hbox (badness 1286) in paragraph at lines 4644--4647
[]\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 4652--4657
[]\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
[940] [941]
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 []\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 4753--4753
 []      \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma
=c(2,2,3,2))[] 
[942]
Underfull \hbox (badness 1264) in paragraph at lines 4944--4957
\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 ,
[943] [944] [945] [946]
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[947 </builddir/build/BUILD/R-4.2.2/library/graphics/help/figures/mai.pdf>]
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[948 </builddir/build/BUILD/R-4.2.2/library/graphics/help/figures/oma.pdf>]
[949] [950]
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 []\T1/pcr/m/n/9 c(prof.pilots = 16, lawyers = 11, farmers = 10, salesmen = 9, 
physicians = 9,[] 
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 []  \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t
eachers = 4,[] 
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[952] [953] [954] [955] [956]
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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)[] 
[957]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5943 \aliasA{plot}{plot.default}{plot}
                                         [958] [959] [960] [961] [962]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6275--6275
 []\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$group, axes = FALSE, main = "no axes")  # ext
remely silly[] 
[963] [964]
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 []               \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co
llapse = "\n")),[] 
[965] [966] [967] [968]
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[]\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see
[969] [970]
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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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[][] 
[971 </builddir/build/BUILD/R-4.2.2/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,[] 
[972]
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 []    \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes  =  FALSE, xlab = "", ylab =
 "", main = main)[] 
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[974]
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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)))))[] 
[975]
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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
[976] [977] [978] [979]
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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))[] 
[980] [981] [982] [983] [984] [985]
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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):[] 
[986]
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 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0
, add = TRUE),[] 
[987] [988] [989] [990] [991]
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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,[] 
[992] [993] [994]
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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, ...)[] 
[995] [996]
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 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL,
 ...,[] 
[997]
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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
[998]
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 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035
, seg.lwd = .8)[] 
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 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, 
lambda = 2),[] 
[999] [1000]
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 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll
apse = ","),[] 
[1001] [1002]
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 []     \T1/pcr/m/n/9 "Le fran�ais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est fa�ile: 
R�gles, Libert�, Egalit�, Fraternit�...")[] 
[1003]
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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
[1004]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni
ts}) has been already used, duplicate ignored
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l.9018 \HeaderA{units}{Graphical Units}{units}
                                               [1005]
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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
[1006] [1007]
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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)[] 
[1008]) (./grid-pkg.tex
Chapter 6.
[1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018]
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[]\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments
 to the
[1019] [1020] [1021] [1022] [1023] [1024]
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it(1, "inches")))[] 
[1025] [1026] [1027]
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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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), 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")),[] 
[1028] [1029] [1030] [1031]
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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
[1032] [1033] [1034] [1035] [1036] [1037] [1038]
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 []  \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75)
, list(...)))[] 
[1039] [1040] [1041]
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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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te"), name="r3")[] 
[1042]
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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 ,
[1043]
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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
[1044] [1045] [1046]
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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
[1047] [1048] [1049]
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 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = 
FALSE)[] 
[1050]
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 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs =
 FALSE,[] 
[1051] [1052]
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 []                          \T1/pcr/m/n/9 children=gList(grob(name="child", vp
="vp1::vp2")),[] 
[1053]
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 []           \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp =
 NULL)[] 
[1054] [1055]
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[]\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix;
 see
[1056] [1057] [1058]
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 []  \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1
, "inches"),[] 
[1059] [1060] [1061] [1062] [1063]
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 []                                       \T1/pcr/m/n/9 children=vpList(viewpor
t(name="vp2"))))[] 
[1064] [1065]
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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")))[] 
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[]\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
[1066] [1067]
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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,[] 
[1068] [1069] [1070]
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 []                \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant
i-clockwise")[] 
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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[] 
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[1083]
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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
[1084] [1085] [1086] [1087]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1088] [1089]
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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
[1090] [1091] [1092] [1093] [1094] [1095]
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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
[1096] [1097]
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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
[1098] [1099] [1100]
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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
[1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111]
[1112] [1113] [1114] [1115] [1116] [1117]
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 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r
ecurse=TRUE)[] 
[1118]
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 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip()
, device=TRUE) 
[1119] [1120]
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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
[1121]
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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 ,
[1122] [1123] [1124] [1125] [1126]
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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"))))[] 
[1127]) (./methods-pkg.tex [1128]
Chapter 7.
[1129] [1130]
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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
[1131] [1132] [1133]
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-
[1134] [1135]
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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[] 
[1136]
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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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[1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149]
[1150] [1151] [1152]
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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[] 
[1153] [1154]
Underfull \hbox (badness 10000) in paragraph at lines 1981--1986
[]\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
[1155] [1156] [1157]
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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 =
[1158] [1159]
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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
[1160] [1161] [1162]
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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
[1163]
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 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin
g(where))[] 
[1164] [1165] [1166]
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 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers
ions visible:[] 
[1167] [1168] [1169] [1170] [1171] [1172] [1173]
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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
[1174] [1175]
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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
[1176]
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[]
[1177] [1178]
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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, ...) {
[1179]
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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
[1180] [1181] [1182] [1183] [1184] [1185]
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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,[] 
[1186]
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 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w
here) 
[1187] [1188] [1189]
Underfull \hbox (badness 2126) in paragraph at lines 4578--4586
[]\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 ,
[1190] [1191] [1192]
Underfull \hbox (badness 10000) in paragraph at lines 4815--4824
[]\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
[1193] [1194] [1195] [1196]
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 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate
 inheritance[] 
[1197]
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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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[1199]
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[]\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...)
[1200] [1201]
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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
[1202] [1203] [1204]
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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
[1205] [1206] [1207] [1208] [1209] [1210]
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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
[1211] [1212]
Underfull \hbox (badness 1248) in paragraph at lines 6351--6355
[]\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 6351--6355
\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
[1213]
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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
[1214] [1215]
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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
[1216]
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[1218] [1219]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.S4}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6981 \aliasA{S4}{S3Part}{S4}
                               [1220]
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 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement 
version of as().[] 
[1221] [1222]
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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")[] 
[1223]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Com
plex}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7237 \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.7239 \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.7240 \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.7242 \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.7243 \aliasA{Summary}{S4groupGeneric}{Summary}
                                                
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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
[1224]
Underfull \hbox (badness 6708) in paragraph at lines 7317--7329
[]\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 ,
[1225] [1226]
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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
[1227]
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 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d
itto w/o "Root"[] 
[1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238]
[1239] [1240]
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 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact
er(), 
[1241]
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 []      \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class
Def =,[] 
[1242] [1243] [1244] [1245]
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 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col
umn matrices[] 
[1246] [1247] [1248]
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 []  \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns),
 "setCount")[] 
[1249] [1250] [1251]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9437--9437
 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo
rmal arguments[] 
[1252] [1253] [1254] [1255]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 9745--9745
 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre
es of freedom[] 
[1256]
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 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9866--9866
 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
[1257] [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266]
Underfull \hbox (badness 10000) in paragraph at lines 10564--10566
[]\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.,
Underfull \hbox (badness 1681) in paragraph at lines 10572--10576
[]\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
[1267] [1268] [1269]) (./parallel-pkg.tex [1270]
Chapter 8.
Underfull \hbox (badness 2418) in paragraph at lines 14--16
[]\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
[1271]
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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
[1272] [1273]
Underfull \hbox (badness 1024) in paragraph at lines 214--217
[]\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
[1274]
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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.
[1275] [1276]
Underfull \hbox (badness 10000) in paragraph at lines 445--447
[]\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
[1277] [1278] [1279] [1280] [1281]
Underfull \hbox (badness 1917) in paragraph at lines 779--788
[]\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
Underfull \hbox (badness 1178) in paragraph at lines 779--788
[]\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
[1282] [1283]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 872--872
 []         \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini
ty.list = NULL)[] 
[1284] [1285] [1286]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1063--1063
 []\T1/pcr/m/n/9 mclapply(list(A, A, A), first, mc.preschedule = FALSE, affinit
y.list = affL)[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 1067--1067
 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch
eduled to suitable CPUs[] 
[1287]
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
[1288]
Underfull \hbox (badness 10000) in paragraph at lines 1206--1214
[]\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
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1243--1243
 []\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)[] 
[1289] [1290]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1359--1359
 []                 \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif
(N, 1, 28)))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1373--1373
 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct,  format = 
"%Y-%m-%d")))[] 
[1291]
Underfull \hbox (badness 1577) in paragraph at lines 1402--1405
[]\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
Underfull \hbox (badness 3375) in paragraph at lines 1449--1451
[]\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
[1292] [1293]) (./splines-pkg.tex [1294]
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
[1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 496--496
 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height,  women, bSpl
ine = TRUE))[] 
[1303]
Underfull \hbox (badness 1043) in paragraph at lines 597--599
[]\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
[1304] [1305]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 712--712
 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, 
sparse = TRUE)))[] 
[1306] [1307] [1308]) (./stats-pkg.tex
Chapter 10.
[1309]
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:[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 94--94
 []  \T1/pcr/m/n/9 identical(.getXlevels(terms(mc), mc), xl[0]) # a empty named
 list, as no factors[] 
[1310] [1311] [1312] [1313] [1314]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 445--445
 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea
rson Chi-square[] 
[1315]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 468--468
 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = 
FALSE) 
[1316] [1317] [1318] [1319] [1320] [1321]
Underfull \hbox (badness 1024) in paragraph at lines 887--889
[]\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
[1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1625--1625
 []          \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 1628--1628
 []          \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm 
= TRUE)[] 
[1333] [1334]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1775--1775
 []                 \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n
a.rm=na.)$y),[] 
[1335]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 1787--1787
 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$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 :[
] 
[1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]
[1347] [1348] [1349]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2805--2805
 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F
ALSE) 
[1350] [1351] [1352] [1353]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3053--3053
 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co
l = "green")[] 
[1354] [1355] [1356]
Underfull \hbox (badness 10000) in paragraph at lines 3264--3266
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo
geneity of
[1357]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 3313--3313
 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = 
FALSE)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 3314--3314
 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = 
FALSE)[] 
[1358] [1359] [1360] [1361]
Package amsmath Warning: Foreign command \atopwithdelims;
(amsmath)                \frac or \genfrac should be used instead
(amsmath)                 on input line 3642.
[1362]
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 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = "
log density",[] 
[1363] [1364] [1365] [1366]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3987--3987
 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit
df = 0) 
[1367] [1368] [1369] [1370] [1371]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4276--4276
 []\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 4277--4277
 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
[1372] [1373] [1374] [1375]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4518--4518
 []\T1/pcr/m/n/9 chisq.test(x, p = p)            #               maybe doubtful
, but is ok![] 
[1376] [1377]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4693--4693
 []  \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df =
 df, ncp = L)),[] 
[1378] [1379]
Underfull \hbox (badness 3989) in paragraph at lines 4787--4794
[]\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 =
[1380] [1381] [1382] [1383] [1384]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5172--5172
 []\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 5174--5174
 []\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))[] 
[1385] [1386] [1387]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5396--5396
 []\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")) 
[1388] [1389] [1390] [1391]
Underfull \hbox (badness 1436) in paragraph at lines 5624--5629
[]\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 5624--5629
\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 5624--5629
\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 ,
[1392] [1393] [1394]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5827--5827
 []         \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE,
 ...)[] 
[1395] [1396]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 5994--5994
 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center =
 TRUE, 
[1397] [1398] [1399]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 6179--6179
 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter =
 NULL) 
[1400] [1401]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 6287--6287
 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en
v = parent.frame())[] 
[1402] [1403] [1404] [1405]
Underfull \hbox (badness 5954) in paragraph at lines 6550--6552
[]\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn
, see
[1406]
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[]\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 6636--6638
[]\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 6639--6644
\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,
[1407]
Underfull \hbox (badness 7238) in paragraph at lines 6675--6678
[][][]\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
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 []\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[] 
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 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, 
type = "tr")[] 
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 []\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):[] 
[1408]
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 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h
oriz = TRUE)[] 
[1409] [1410] [1411]
Underfull \vbox (badness 10000) has occurred while \output is active [1412]
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 []                     \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker
n = TRUE))))[] 
[1413] [1414]
Underfull \vbox (badness 10000) has occurred while \output is active [1415]
[1416] [1417] [1418]
Underfull \hbox (badness 10000) in paragraph at lines 7394--7398
[]\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
[1419]
Underfull \hbox (badness 6493) in paragraph at lines 7493--7496
[]\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
[1420] [1421]
Underfull \hbox (badness 10000) in paragraph at lines 7630--7633
[]\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 =
[1422] [1423] [1424] [1425] [1426] [1427]
Underfull \hbox (badness 10000) in paragraph at lines 8042--8047
[]\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 ,
 ...,
[1428] [1429] [1430] [1431] [1432] [1433]
Underfull \hbox (badness 1210) in paragraph at lines 8397--8399
[]\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
[1434] [1435] [1436] [1437] [1438] [1439]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 8860--8860
 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q
uasipoisson())[] 
[1440]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 8905--8905
 []\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))[] 
[1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9488--9488
 []           \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 9489--9489
 []                     \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod
erateS", "VeryS")))[] 
[1449] [1450] [1451]
Underfull \hbox (badness 7291) in paragraph at lines 9668--9670
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test 
of homogeneity of
[1452] [1453] [1454] [1455] [1456] [1457] [1458]
Underfull \hbox (badness 6944) in paragraph at lines 10160--10166
[][][]\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
);
[1459] [1460] [1461]
Underfull \hbox (badness 3758) in paragraph at lines 10374--10377
[]\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
[1462] [1463] [1464] [1465]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 10618--10618
 []    \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL
, ...)[] 
Underfull \hbox (badness 4518) in paragraph at lines 10644--10649
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1466]
Underfull \hbox (badness 4132) in paragraph at lines 10683--10687
[]\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth
od
Underfull \hbox (badness 1112) in paragraph at lines 10737--10743
[]\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-
[1467]
Underfull \hbox (badness 10000) in paragraph at lines 10788--10791
[]\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
[1468] [1469] [1470]
Underfull \hbox (badness 2142) in paragraph at lines 11005--11008
[]\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 ^^@
[1471]
Underfull \hbox (badness 1708) in paragraph at lines 11086--11090
[]\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter-
na-tives are:
[1472]
Underfull \hbox (badness 10000) in paragraph at lines 11128--11134
[][][]\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 11166--11171
[]\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 (=
[1473] [1474]
Underfull \hbox (badness 2635) in paragraph at lines 11299--11302
\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
[1475] [1476] [1477]
Underfull \hbox (badness 1694) in paragraph at lines 11482--11485
[]\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these 
de-fault to
[1478]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11580--11580
 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col
SideColors = cc,[] 
[1479]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 11613--11613
 []            \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 11626--11630
[]\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
[1480] [1481] [1482] [1483] [1484]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11948--11948
 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4)
, DEV.FUN = nD)[] 
[1485]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11963 \aliasA{hat}{influence.measures}{hat}
                                             
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12023--12023
 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA
LSE),[] 
[1486]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12035--12035
 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE),
 ...)[] 
Underfull \hbox (badness 1062) in paragraph at lines 12088--12093
[]\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 12105--12107
[]\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
[1487] [1488] [1489] [1490]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12360--12360
 []                 \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = 
TRUE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12361--12361
 []                 \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact
or)),[] 
[1491] [1492] [1493] [1494] [1495] [1496]
Underfull \hbox (badness 10000) in paragraph at lines 12707--12709
[]\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 12730--12732
[]\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
[1497] [1498] [1499] [1500] [1501]
Underfull \hbox (badness 3417) in paragraph at lines 13037--13039
[]\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 13043--13047
[]\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 13043--13047
\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
[1502] [1503] [1504] [1505] [1506] [1507]
Underfull \hbox (badness 1496) in paragraph at lines 13457--13463
[]\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
[1508] [1509] [1510] [1511]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13706--13706
 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c
ol = "gold")[] 
[1512]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13807--13807
 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep
t", "slope"))[] 
[1513]
Underfull \hbox (badness 4518) in paragraph at lines 13855--13860
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1514] [1515] [1516]
Underfull \hbox (badness 10000) in paragraph at lines 14062--14066
[]\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 ,
[1517] [1518] [1519] [1520] [1521]
Underfull \hbox (badness 1163) in paragraph at lines 14402--14410
\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 ,
[1522] [1523]
Underfull \hbox (badness 4518) in paragraph at lines 14522--14527
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1524] [1525] [1526]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 14710--14710
 []\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 14711--14711
 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1527] [1528] [1529] [1530] [1531]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15054--15054
 []\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 15055--15055
 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
[1532]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 15148--15148
 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra
nge(x))) 
[1533] [1534] [1535] [1536] [1537] [1538] [1539]
Underfull \hbox (badness 2726) in paragraph at lines 15557--15560
[]\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 ,
[1540]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15651--15651
 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i
n R <= 3.5.0[] 
[1541] [1542] [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 16278--16278
 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc
gp, data = esoph) 
[1551] [1552]
Underfull \hbox (badness 1490) in paragraph at lines 16425--16430
\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
[1553]
Underfull \hbox (badness 1648) in paragraph at lines 16491--16493
[]\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,
[1554]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 16576--16576
 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum"
, b = contr.poly))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 16577--16577
 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con
tr.helmert"))[] 
[1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17134--17134
 []\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[] 
[1564] [1565] [1566]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17366--17366
 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, 
s, prob = 0.4)),[] 
[1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] [1575] [1576]
Underfull \vbox (badness 10000) has occurred while \output is active [1577]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 18088--18088
 []\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 [1578]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 18106--18106
 []\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 18107--18107
 []\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 18111--18111
 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co
nverging on *some*):[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18112--18112
 []\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 18115--18115
 []        \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl
("^NixOS", osVersion)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18147--18147
 []              \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21
), th = b[1]))[] 
[1579] [1580] [1581]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18323--18323
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi
ty), DNase.2)[] 
[1582]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18370--18370
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18417--18417
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
[1583] [1584] [1585] [1586]
Overfull \hbox (102.78088pt too wide) in paragraph at lines 18623--18623
 []             \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els
e 2), central = FALSE)[] 
[1587] [1588] [1589] [1590] [1591]
Underfull \hbox (badness 1248) in paragraph at lines 18938--18941
[]\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 18951--18955
[]\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 18959--18963
\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
[1592]
Underfull \hbox (badness 2042) in paragraph at lines 19017--19019
[]\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
[1593]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 19123--19123
 []      \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no
t* at boundary[] 
[1594]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19166--19166
 []     \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", 
axes = FALSE)[] 
Overfull \hbox (123.1803pt too wide) in paragraph at lines 19184--19184
 []\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 19187--19187
 []\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 19207--19207
 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max
(interval), 
[1595]
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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 19245--19256
[]\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 19245--19256
\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
[1596]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19308--19308
 []\T1/pcr/m/n/9 f  <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 
1)), 10), 10)[] 
[1597] [1598] [1599]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19535--19535
 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 
1, lty = 1:6,[] 
[1600] [1601]
Underfull \hbox (badness 1337) in paragraph at lines 19646--19649
[]\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
[1602] [1603] [1604] [1605] [1606]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 19965--19965
 []      \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 
1.5),[] 
[1607] [1608]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 20053--20053
 []       \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 20055--20055
 []              \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else 
points,[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 20057--20057
 []     \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact
ive(),[] 
[1609]
Underfull \hbox (badness 10000) in paragraph at lines 20117--20123
\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 20117--20123
\T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp
Underfull \hbox (badness 10000) in paragraph at lines 20125--20131
[]\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 20136--20139
[]\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 <-
[1610] [1611] [1612] [1613] [1614]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20437--20437
 []                    \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3,
 ...)[] 
Underfull \hbox (badness 1194) in paragraph at lines 20447--20450
[]\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting
 of the con-fi-dence
[1615]
Underfull \hbox (badness 1107) in paragraph at lines 20505--20507
[]\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
[1616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20560--20560
 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange
") # all colors[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 20567--20567
 []\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)[] 
[1617] [1618]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20661--20661
 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma
r..., oma...)")[] 
[1619] [1620]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 20790--20790
 []    \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE)  # no 
cancellation[] 
[1621]
Underfull \hbox (badness 7740) in paragraph at lines 20853--20855
[]\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
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 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = 
FALSE) 
[1622]
Underfull \hbox (badness 10000) in paragraph at lines 20957--20959
[]\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
[1623]
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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 20999--20999
 []\T1/pcr/m/n/9 ## poly(<matrix>, df) --- used to fail till July 14 (vive la F
rance!), 2017:[] 
[1624] [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634]
[1635] [1636]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 21854--21854
 []          \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e
xactly equal typically[] 
[1637]
Underfull \hbox (badness 6859) in paragraph at lines 21921--21928
[][][]\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 21932--21938
[]\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 ,
[1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648]
[1649]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 22678--22678
 []         \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign
 = TRUE, ...)[] 
[1650] [1651] [1652] [1653] [1654]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 22962--22962
 []             \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x
)) &&[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 22963--22963
 []                          \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr("
, "p-v"),[] 
[1655] [1656] [1657] [1658] [1659]
Underfull \hbox (badness 1337) in paragraph at lines 23289--23295
[]\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
[1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667]
Underfull \hbox (badness 10000) in paragraph at lines 23848--23850
[]\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 23848--23850
\T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co
ntent / iml / 2017 / 05 / 24 /
Underfull \hbox (badness 10000) in paragraph at lines 23855--23856
[]\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or
g / wiki / Quantile # Estimating _
[1668] [1669]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 23966--23966
 []       \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact"
, "compact"),[] 
[1670]
Underfull \hbox (badness 1028) in paragraph at lines 24024--24027
[]\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
[1671] [1672]
Underfull \hbox (badness 10000) in paragraph at lines 24139--24142
[]\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 24194--24196
[]\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 =
[1673]
Underfull \hbox (badness 7099) in paragraph at lines 24258--24260
[]\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 =
[1674]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24293--24293
 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, 
decreasing=TRUE))[] 
[1675]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24369--24369
 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 
10:1, mean)")[] 
[1676] [1677]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 24486--24486
 []\T1/pcr/m/n/10 #         varying = ___,  # list / matrix / vector (use with 
care)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 24487--24487
 []\T1/pcr/m/n/10 #         v.names = ___,  # vector of variable names in long 
format[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 24488--24488
 []\T1/pcr/m/n/10 #         timevar, times, # name / values of constructed time
 variable[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 24489--24489
 []\T1/pcr/m/n/10 #         idvar, ids)     # name / values of constructed id v
ariable[] 
[1678] [1679]
Underfull \hbox (badness 10000) in paragraph at lines 24649--24654
[][][]\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 24649--24654
[][][]\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
[1680]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 24660--24660
 []\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 24661--24661
 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev
ar = "time")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24680--24680
 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide
", v.names = "x")[] 
[1681]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 24784--24784
 []       \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na.
omit", "fail"),[] 
[1682]
Underfull \hbox (badness 1033) in paragraph at lines 24827--24833
\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 24848--24851
[]\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] =
[1683]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24930--24930
 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi
ans Example")[] 
[1684]
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 []\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 24971--24971
 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1
:5, xlab = NA,[] 
[1685] [1686] [1687] [1688] [1689] [1690] [1691]
Underfull \hbox (badness 6268) in paragraph at lines 25429--25434
[][][]\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 ,
[1692] [1693] [1694] [1695]
Underfull \hbox (badness 1867) in paragraph at lines 25638--25640
[]\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 25653--25657
[]\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 25653--25657
\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
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 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165  = "Residual standard error"  printed fr
om summary(lm1)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 25696--25696
 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole
rance=1e-15))[] 
[1696] [1697] [1698]
Underfull \hbox (badness 2495) in paragraph at lines 25879--25888
[]\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 [][]$\T1/pcr/m/n/10 https : / / en .
[1699] [1700]
Underfull \hbox (badness 2197) in paragraph at lines 26021--26024
[]\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion,
 []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and
[1701]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 26041--26041
 []       \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends
 = FALSE)[] 
Underfull \hbox (badness 1412) in paragraph at lines 26048--26050
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui
red; de-faults to
[1702]
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 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS
S"), smooth(x)))[] 
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 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda 
= NULL, cv = FALSE, 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 26163--26163
 []              \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee
p.stuff = FALSE)[] 
[1703] [1704] [1705]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 26392--26392
 []    \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t
ol) ))[] 
Underfull \hbox (badness 2547) in paragraph at lines 26396--26402
[]\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/
10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in
g only
[1706]
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 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars)  &  smoothi
ng splines")[] 
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 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # =
= unique(cars$speed)[] 
[1707] [1708] [1709]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 26655--26655
 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na.
fail, 
[1710] [1711] [1712] [1713] [1714] [1715] [1716]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 27035--27035
 []          \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC"
, "hyman"),[] 
[1717] [1718]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 27216--27216
 []\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 27222--27222
 []\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 27231--27231
 []\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 27232--27232
 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman")   (x), add = TRUE, c
ol = 4, n = 1001)[] 
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Underfull \hbox (badness 2922) in paragraph at lines 27301--27306
[]\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
[1720]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 27338--27338
 []  \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 27341--27341
 []                    \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 27350--27350
 []         \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 27351--27351
 []  \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 27355--27355
 []  \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi
[1]+phi[2],2), phi[1]),[] 
[1721]
Underfull \hbox (badness 3240) in paragraph at lines 27409--27412
[][][]\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
[1722]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 27430--27430
 []  \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),[] 
[1723]
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 []  \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOrig(xx, Asym = 5, lrc = log
(log(2)))) )[] 
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 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim =
 c(-1/4, 5),[] 
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 []  \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)[] 
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 []       \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5]
 == frac(log(2), e^{phi[2]})}),[] 
[1724]
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[]\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 27593--27593
 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat
a = Indo.1),[] 
[1725]
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 []  \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 27623--27623
 []\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)[] 
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 []\T1/pcr/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d
atN, control = list(scaleOffset=1))[] 
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 []           \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1
e-11, nDcentral=TRUE), trace=TRUE)[] 
[1726] [1727]
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 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK
a)*input)) 
[1728]
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[]\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
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 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm
id", phi[4] == "scal")))[] 
[1729]
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[]\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
[1730]
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 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = "
red", lwd=2)[] 
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[]\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
[1731]
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 []\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)[] 
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 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] 
== "scal")))[] 
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 []  \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[] 
[1732]
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[]\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
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 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt),
 digits = 3)[] 
[1733]
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 []       \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS
micmen model")[] 
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[]\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
[1734]
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 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
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 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
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 []\T1/pcr/m/n/9 plot(weight ~ Time, Chick.6, xlim = c(0, 21), main = "SSweibul
l() fit to Chick.6")[] 
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 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f
m1)[["Drop"]]), lty = 3)[] 
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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
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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
[1754]
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[]\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
[1755]
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 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t
race = FALSE) 
[1756]
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[]\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)
[1757] [1758]
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 []\T1/pcr/m/n/9 symnum(ii, cutpoints =  2*(0:4), symbols = c(".", "-", "+", "$
"), show.max = TRUE)[] 
[1759]
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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
[1760] [1761] [1762]
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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,[] 
[1763]
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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
 resid-u-als, when
[1764] [1765]
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 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s
pan.smth = 1/4)[] 
[1766]
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 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = 
TRUE,[] 
[1767]
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[]\T1/ptm/m/n/10 If a []\T1/pcr/m/n/10 specials []\T1/ptm/m/n/10 ar-gu-ment was
 given to [][][]\T1/pcr/m/n/10 terms.formula[][][] []\T1/ptm/m/n/10 there is a
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 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE) 
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 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1777] [1778] [1779] [1780] [1781]
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v = FALSE,[] 
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 []        \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace
 = 0)[] 
[1782] [1783]
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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:[] 
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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
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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)[] 
[1798] [1799] [1800]
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 []      \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps
 = getOption("ts.eps"), ...)[] 
[1801]
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 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F
ALSE, 
[1802] [1803]
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 []\T1/pcr/m/n/9 ## The Female:Rejected combination has NA \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 Freq\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 (and NA prints \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 invisibly\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 as "")[] 
[1804]) (./stats4-pkg.tex
Chapter 11.
[1805] [1806] [1807]
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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[] 
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                                                   [1813] [1814] [1815])
(./tcltk-pkg.tex [1816]
Chapter 12.
[1817] [1818] [1819] [1820]
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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
[1825] [1826] [1827] [1828] [1829] [1830]
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 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0.
0", "end"))))[] 
[1831] [1832] [1833] [1834] [1835]
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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
[1836]) (./tools-pkg.tex
Chapter 13.
[1837]
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 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for
 new methods.[] 
[1838]
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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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[1839]
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 []\T1/pcr/m/n/9 assertCondition(ff(), "error", "warning") # ok (quietly, catch
ing warning)[] 
[1840]
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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
 ,
[1841]
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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
[1842] [1843]
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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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xz"),[] 
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 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co
mpress == "none")[] 
[1851] [1852] [1853]
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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, ...)[] 
[1854]
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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
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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
[1855]
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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
[1860]
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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
[1861] [1862]
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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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[1869]
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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
[1870]
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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
[1871]
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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
 \T1/ptm/m/n/10 3.x.y to be up-dated to those cur-rently in
[1872]
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 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str
ong", 
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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
 sub-set of
Underfull \hbox (badness 10000) in paragraph at lines 2399--2407
[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
Underfull \hbox (badness 1558) in paragraph at lines 2399--2407
\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,
[1873]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2435--2435
 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster"
, "codetools")[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2468--2468
 []    \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations
 = TRUE)[] 
[1874] [1875] [1876] [1877]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2752--2752
 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macros", "system.
Rd"),[] 
[1878]
Underfull \hbox (badness 2486) in paragraph at lines 2797--2805
[]\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
[1879] [1880] [1881]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 3009--3009
 []\T1/pcr/m/n/10 checkDocFiles   (package, dir, lib.loc = NULL, chkInternal = 
FALSE) 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 3013--3013
 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = 
FALSE)[] 
[1882] [1883] [1884]
Underfull \hbox (badness 1072) in paragraph at lines 3196--3198
[]\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
[1885] [1886] [1887] [1888] [1889]
Overfull \hbox (72.78088pt too wide) in paragraph at lines 3534--3534
 []             \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro
s", "system.Rd"))[] 
[1890]
Underfull \hbox (badness 5417) in paragraph at lines 3572--3582
[]\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 
,
[1891] [1892] [1893]
Underfull \hbox (badness 4108) in paragraph at lines 3782--3789
[]\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
[1894] [1895]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 3882--3882
 []                      \T1/pcr/m/n/10 types = c("examples", "tests", "vignett
es"),[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 3885--3885
 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter
net"))[] 
Underfull \hbox (badness 10000) in paragraph at lines 3902--3904
[]\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run
,
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[]\T1/pcr/m/n/10 testInstalledBasic []\T1/ptm/m/n/10 runs the ba-sic tests, if 
in-stalled. This should be run with
[1896] [1897]
Underfull \hbox (badness 7832) in paragraph at lines 4041--4044
[]\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
[1898] [1899] [1900] [1901]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4276--4276
 []  \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry
run),[] 
[1902] [1903]
Overfull \hbox (96.78088pt too wide) in paragraph at lines 4438--4438
 []\T1/pcr/m/n/10 update_pkg_po(pkgdir, pkg = NULL, version = NULL, mergeOpts =
 "", copyright, bugs) 
Underfull \hbox (badness 3118) in paragraph at lines 4449--4453
[]\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/pcr/m/n/10 m
sgmerge []\T1/ptm/m/n/10 in ad-di-tion to
Underfull \hbox (badness 10000) in paragraph at lines 4453--4456
[]\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
[1904]
Underfull \hbox (badness 6859) in paragraph at lines 4469--4474
[]\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 4477--4483
[]\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 4477--4483
\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
[1905] [1906] [1907]
Underfull \hbox (badness 10000) in paragraph at lines 4703--4705
[]\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
[1908]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4732--4732
 []               \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F
ALSE,[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 4733--4733
 []               \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr
ess = "xz",[] 
Underfull \hbox (badness 3240) in paragraph at lines 4746--4749
[]\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 4750--4760
[]\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 4788--4794
[]\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 4788--4794
\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 ',
[1909]
Underfull \hbox (badness 1571) in paragraph at lines 4816--4820
[]\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 4842--4847
\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
[1910] [1911]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4984--4984
 []\T1/pcr/m/n/9 xgettext(tmpPkg, asCall=TRUE )[[1]] # default; shows  \TS1/pcr
/m/n/9 ' \T1/pcr/m/n/9 sqrt(as.complex(x)) \TS1/pcr/m/n/9 '[] 
[1912]) (./utils-pkg.tex
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 ',
[1913] [1914] [1915] [1916]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 258--258
 []\T1/pcr/m/n/9 find("cor", numeric = TRUE)                     # numbers with
 these names[] 
[1917]
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",
[1918]
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
[1919]
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"))[] 
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 []         \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No
", "Cancel"))),[] 
[1920] [1921] [1922]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 683--683
 []\T1/pcr/m/n/10 aspell_package_Rd_files(dir, drop = c("\\author", "\\referenc
es"), 
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 []\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 690--690
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 691--691
 []\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 692--692
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
Underfull \hbox (badness 10000) in paragraph at lines 726--732
[]\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 726--732
[]\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-
[1923] [1924] [1925] [1926] [1927]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 1049--1049
 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer =
 NULL, 
[1928]
Underfull \hbox (badness 1748) in paragraph at lines 1115--1123
[]\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/pcr/m/n/
10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$
\T1/ptm/m/n/10 , in-di-cat-
Underfull \hbox (badness 2961) in paragraph at lines 1115--1123
\T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f
or-mat-
Underfull \hbox (badness 1092) in paragraph at lines 1115--1123
\T1/ptm/m/n/10 as [][][]\T1/pcr/m/n/10 getOption[][][]("citation.bibtex.max", 1
) []\T1/ptm/m/n/10 which is []\T1/pcr/m/n/10 1 []\T1/ptm/m/n/10 typ-i-cally.
Underfull \hbox (badness 1817) in paragraph at lines 1115--1123
\T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f
ault by
Underfull \hbox (badness 10000) in paragraph at lines 1127--1129
[]\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing
[1929]
Underfull \hbox (badness 10000) in paragraph at lines 1235--1238
[]\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Digital _ Object _
[1930] [1931]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1318--1318
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1932] [1933] [1934] [1935] [1936]
Underfull \hbox (badness 1859) in paragraph at lines 1721--1730
[]\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b
e quite large the com-
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\T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1
/ptm/m/n/10 never re-turns. Do not re-port that
[1937] [1938]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1826--1826
 []                                     \T1/pcr/m/n/9 data = infert, family = b
inomial())))[] 
[1939]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 1861--1861
 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b
efore$timestamp,[] 
[1940]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 2007--2007
 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp"
), md5sum=TRUE)[] 
[1941]
Underfull \hbox (badness 2277) in paragraph at lines 2076--2081
[]\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
[1942]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 2109--2109
 []\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 2111--2111
 []\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 2119--2119
 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in
 Unicode 13.)[] 
[1943] [1944] [1945]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2267--2267
 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1946]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2319--2319
 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1947] [1948]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 2489--2489
 []                 \T1/pcr/m/n/9 warning("Recommended package \TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 mgcv\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is not installed properly")[] 
[1949]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2512--2512
 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after =
 NULL,[] 
[1950]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2632--2632
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1951]
Underfull \hbox (badness 1082) in paragraph at lines 2706--2710
[][][]\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;
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.2711 ... the Clipboard in MS Windows}{clipboard}
                                                   [1952]
Underfull \hbox (badness 1163) in paragraph at lines 2742--2744
[]\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 .
[1953]
Underfull \hbox (badness 10000) in paragraph at lines 2835--2837
[]\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
[1954] [1955] [1956] [1957]
Underfull \hbox (badness 10000) in paragraph at lines 3053--3055
[]\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see
[1958] [1959] [1960] [1961]
Underfull \hbox (badness 1762) in paragraph at lines 3346--3349
[]\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 =
[1962]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3438--3438
 []\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 3439--3439
 []\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 '[] 
[1963]
Underfull \hbox (badness 2452) in paragraph at lines 3515--3518
[]\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
[1964] [1965] [1966] [1967] [1968] [1969]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 3931--3931
 []  \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf
orm$r_arch, "stats.dll"))[] 
[1970]
Underfull \hbox (badness 4779) in paragraph at lines 4010--4015
[]\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10
 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use
[1971]
Underfull \hbox (badness 1072) in paragraph at lines 4073--4077
[]\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by
 the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the
[1972]
Underfull \hbox (badness 7238) in paragraph at lines 4129--4134
[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1
0 via \T1/ptm/m/n/10 the en-vi-ron-
Underfull \hbox (badness 1337) in paragraph at lines 4129--4134
\T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or 
[]\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / 
/ curl . se / libcurl / c /
Underfull \hbox (badness 1184) in paragraph at lines 4144--4160
\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-
[1973]
Underfull \hbox (badness 4660) in paragraph at lines 4261--4264
\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
[1974]
Underfull \hbox (badness 10000) in paragraph at lines 4285--4287
[]\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
[1975] [1976]
Underfull \hbox (badness 1565) in paragraph at lines 4470--4474
[]\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
[1977]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4553--4553
 []        \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F
ALSE,[] 
[1978]
Underfull \hbox (badness 1910) in paragraph at lines 4587--4594
\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 4587--4594
\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 4587--4594
[]\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 4587--4594
\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 4594--4601
[]\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)
[1979] [1980] [1981] [1982]
Underfull \hbox (badness 5939) in paragraph at lines 4840--4842
[]\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
[1983] [1984]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4983--4983
 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o
ne is in the[] 
[1985]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for
mat}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5054 ...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.5054 ...mat Unordered and Ordered Lists}{format}
                                                   [1986] [1987] [1988]
[1989] [1990] [1991] [1992] [1993]
Underfull \hbox (badness 1622) in paragraph at lines 5577--5581
[]\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
[1994] [1995] [1996] [1997] [1998] [1999]
Underfull \hbox (badness 1448) in paragraph at lines 5956--5961
[]\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
[2000] [2001]
Overfull \hbox (96.78088pt too wide) in paragraph at lines 6106--6106
 []\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 6118--6118
 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported 
as tail.matrix()[] 
[2002] [2003]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6251--6251
 []    \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 6252--6252
 []    \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops 
"other" attributes ..[] 
[2004] [2005] [2006]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6462--6462
 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h
elp(dgamma):[] 
[2007]
Underfull \hbox (badness 10000) in paragraph at lines 6546--6548
[]\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
[2008]
Underfull \hbox (badness 1502) in paragraph at lines 6595--6600
[]\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 6595--6600
\T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are 
listed in file
[2009] [2010]
Underfull \hbox (badness 10000) in paragraph at lines 6768--6777
[]\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de
x,
Underfull \hbox (badness 10000) in paragraph at lines 6768--6777
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 R.home("docs")/html/packages.html\T1/ptm/m/n/10 
', which can be re-made by
[2011]
Underfull \hbox (badness 2150) in paragraph at lines 6832--6835
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion 
to search. See
[2012]
Underfull \hbox (badness 5175) in paragraph at lines 6848--6851
[]\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
[2013]
Underfull \hbox (badness 3118) in paragraph at lines 6971--6973
[]\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
[2014] [2015] [2016]
Underfull \hbox (badness 5091) in paragraph at lines 7146--7148
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 7176--7183
[]\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 7176--7183
\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 7176--7183
\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 7191--7201
\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
[2017]
Underfull \hbox (badness 4441) in paragraph at lines 7234--7237
[]\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 7234--7237
[]\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 7242--7245
[]\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
[2018]
Underfull \hbox (badness 2376) in paragraph at lines 7313--7320
[]\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 7313--7320
\T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there
 are source pack-ages
Underfull \hbox (badness 1342) in paragraph at lines 7313--7320
\T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com
-piled is con-trolled by
Underfull \hbox (badness 1087) in paragraph at lines 7321--7324
[]\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
[2019]
Underfull \hbox (badness 1314) in paragraph at lines 7401--7408
[]\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
[2020]
Underfull \hbox (badness 10000) in paragraph at lines 7481--7486
[][][]\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 7504--7504
 []  \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc
lude/udunits2"))[] 
[2021]
Underfull \hbox (badness 5133) in paragraph at lines 7540--7544
[]\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 7554--7557
[]\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
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7601--7601
 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields
 = "License")[] 
[2022] [2023]
Underfull \hbox (badness 4132) in paragraph at lines 7725--7727
[]\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
[2024] [2025] [2026]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7892--7892
 []\T1/pcr/m/n/9 ls.str(mode = "list")   #- what are the structured objects I h
ave defined?[] 
[2027] [2028] [2029]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 8035--8035
 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F
ALSE) 
Underfull \hbox (badness 10000) in paragraph at lines 8075--8077
[]\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
[2030] [2031]
Underfull \hbox (badness 10000) in paragraph at lines 8180--8182
[]\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 8185--8187
[]\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
[2032] [2033] [2034] [2035]
Underfull \hbox (badness 1859) in paragraph at lines 8413--8416
[]\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br
owser (by
Underfull \hbox (badness 1052) in paragraph at lines 8432--8442
\T1/ptm/m/n/10 ac-cord-ing to ver-sion us-ing \T1/pcr/m/n/10 section \T1/ptm/m/
n/10 el-e-ments with names start-ing with a suit-able pre-fix
[2036]
Underfull \hbox (badness 1655) in paragraph at lines 8507--8510
[]\T1/ptm/m/n/10 A data frame in-her-it-ing from class []\T1/pcr/m/n/10 "news_d
b"[]\T1/ptm/m/n/10 , with [][][]\T1/pcr/m/n/10 attributes[][][] "package" []\T1
/ptm/m/n/10 (and
Overfull \hbox (25.98041pt too wide) in paragraph at lines 8518--8518
 []\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 8526--8526
 []\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 8534--8534
 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st
andardize a bit more[] 
[2037] [2038]
Underfull \hbox (badness 1917) in paragraph at lines 8621--8623
[]\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 ,
[2039] [2040] [2041] [2042]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 8893--8893
 []            \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica
tion", "Built"),[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 8894--8894
 []            \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 8895--8895
 []            \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f
ields=date.fields))[] 
[2043]
Underfull \hbox (badness 10000) in paragraph at lines 8923--8925
[]\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 8937--8939
[]\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 8945--8950
[]\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,
[2044]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8991--8991
 []          \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 8992--8992
 []                                   \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[] 
[2045] [2046]
Underfull \hbox (badness 10000) in paragraph at lines 9121--9126
[]\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 9128--9131
[]\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
[2047]
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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("<", 
">"),[] 
[2048] [2049] [2050]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9418--9418
 []         \T1/pcr/m/n/9 "S original, <http://statwww.epfl.ch/davison/BMA/libr
ary.html>"),[] 
[2051]
Underfull \hbox (badness 1789) in paragraph at lines 9551--9553
[]\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
[2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060]
Underfull \hbox (badness 5203) in paragraph at lines 10124--10127
[]\T1/ptm/m/n/10 Valid com-ple-tions af-ter the []\T1/pcr/m/n/10 $ []\T1/ptm/m/
n/10 ex-trac-tor are de-ter-mined by the generic func-tion
[2061] [2062] [2063]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 10374--10374
 []         \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "
no.loss"),[] 
[2064] [2065]
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 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr
anspose = TRUE)[] 
[2066] [2067] [2068]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 10716--10716
 []\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[] 
[2069]
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 []           \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss",
 "no.loss"),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 10805--10805
 []           \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines.
skip,[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 10810--10810
 []           \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski
pNul = FALSE)[] 
[2070]
Underfull \hbox (badness 2027) in paragraph at lines 10882--10885
[]\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
[2071] [2072] [2073] [2074]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 11161--11161
 []\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 11162--11162
 []             \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64-
bit"))[] 
Underfull \hbox (badness 10000) in paragraph at lines 11169--11174
[]\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 11169--11174
\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 11169--11174
[]\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
[2075] [2076] [2077] [2078]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 11402--11402
 []        \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c
(1, 0))) 
[2079] [2080] [2081] [2082]
Underfull \hbox (badness 10000) in paragraph at lines 11663--11667
\T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral
s & oldid = 78252134$[][]\T1/ptm/m/n/10 .
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11681--11681
 []\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 11686--11686
 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in  
{1,2,..,3899} :[] 
[2083] [2084]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 11819--11819
 []\T1/pcr/m/n/10 4. |     \-base:::tryCatchOne(expr, names, parentenv, handler
s[[1L]])[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 11820--11820
 []\T1/pcr/m/n/10 5. |       \-base:::doTryCatch(return(expr), name, parentenv,
 handler)[] 
[2085] [2086]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 11955--11955
 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold
 = 0) 
[2087] [2088]
Underfull \hbox (badness 1917) in paragraph at lines 12087--12090
[]\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 12087--12090
\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 12110--12110
 []\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 '[] 
[2089]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 12202--12202
 []            \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news",
 "Rfunctions",[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 12203--12203
 []                         \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig
nettes"),[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 12205--12205
 []            \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s
ubject",[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 12206--12206
 []                       \T1/pcr/m/n/10 "subject:descending", "size", "size:de
scending"),[] 
[2090]
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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
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 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes","
Rfunctions"))[] 
[2091]
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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
[2092]
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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 /
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 []             \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F
ALSE, ...)[] 
[2093] [2094] [2095]
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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
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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
[2096] [2097]
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 []                 \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa
rent")[] 
[2098]
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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
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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
[2099]
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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
[2100] [2101] [2102] [2103]
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[]\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the plat-form \T1/phv/m/n/10
 R \T1/ptm/m/n/10 was built un-der. Where
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[]\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in
g
[2104]
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 []\T1/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at 
end of report[] 
[2105]
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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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 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf
fix)) 
[2106] [2107] [2108]
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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
[2109]
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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-
[2110] [2111] [2112]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 13786--13786
 []                       \T1/pcr/m/n/10 format(x, trim = TRUE, drop0trailing =
 TRUE, ...))[] 
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[]\T1/ptm/m/n/10 logical; if []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault),
 [][][]\T1/pcr/m/n/10 deparse[][][](control = <S>) []\T1/ptm/m/n/10 will not ha
ve
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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;
[2113]
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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[] 
[2114]
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 []\T1/pcr/m/n/9 ## Truncation behavior (<-> correct width measurement) for "lo
ng" non-ASCII:[] 
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 []\T1/pcr/m/n/9 ## nchar.max: 1st line needs an increase of  2  in order to se
e  1  (in UTF-8!):[] 
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 []\T1/pcr/m/n/9 invisible(lapply(60:66, function(N) str( ch , nchar.max = N)))
 # "1 is 1" here[] 
[2115] [2116] [2117]
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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
[2118]
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[]\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's setup func-tion. Se
e
Underfull \hbox (badness 1389) in paragraph at lines 14204--14207
[][][]\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-
[2119]
Underfull \hbox (badness 6300) in paragraph at lines 14252--14259
[]\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
Underfull \hbox (badness 6252) in paragraph at lines 14252--14259
\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
Underfull \hbox (badness 4556) in paragraph at lines 14252--14259
\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$"[]\T1/ptm/m/n/10 ) and
[2120] [2121]
Underfull \hbox (badness 2020) in paragraph at lines 14417--14425
\T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/
n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on
 some plat-forms),
Underfull \hbox (badness 1194) in paragraph at lines 14417--14425
\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --
exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n
/10 ' (and sim-i-lar) and on Win-dows
[2122]
Underfull \hbox (badness 1622) in paragraph at lines 14426--14433
[]\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p
cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able
[2123]
Underfull \hbox (badness 5022) in paragraph at lines 14567--14571
[]\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t
o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment 
vari-able
Underfull \hbox (badness 10000) in paragraph at lines 14574--14577
[][][]$\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 .
Underfull \hbox (badness 10000) in paragraph at lines 14574--14577
\T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht
ml # tag _ 20 _ 92 _
[2124] [2125] [2126]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 14740--14740
 []             \T1/pcr/m/n/10 numerals = c("allow.loss", "warn.loss", "no.loss
"), ...)[] 
[2127] [2128] [2129] [2130] [2131] [2132]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15181--15181
 []             \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc,
 ...),[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15187--15187
 []             \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc,
 ...),[] 
Underfull \hbox (badness 4467) in paragraph at lines 15208--15210
[]\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
[2133]
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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 ,
Underfull \hbox (badness 10000) in paragraph at lines 15243--15248
[]\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
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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 =
Underfull \hbox (badness 1226) in paragraph at lines 15279--15284
\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
[2134]
Underfull \hbox (badness 10000) in paragraph at lines 15308--15311
[][][]\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 ,
Overfull \hbox (15.18042pt too wide) in paragraph at lines 15362--15362
 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/
csb/ch3a.txt") 
[2135] [2136] [2137]
Underfull \hbox (badness 2293) in paragraph at lines 15569--15572
[][][]\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[][][](<basename>,
[2138]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 15585--15585
 []\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:[]
 
[2139]
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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)))[] 
[2140] [2141]
Underfull \hbox (badness 1297) in paragraph at lines 15805--15807
[]\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i
s se-lected, or
[2142]
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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.
[2143] [2144]
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 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep =
 " ", 
[2145]
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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
Underfull \hbox (badness 10000) in paragraph at lines 16069--16071
[]\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 =
[2146] [2147] [2148]) [2149] [2150] (./KernSmooth-pkg.tex
Chapter 15.
[2151]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 123--123
 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat
e = TRUE) 
[2152] [2153] [2154] [2155] [2156]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 518--518
 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun
 = 0.05, 
[2157] [2158] [2159] [2160]) (./MASS-pkg.tex
Chapter 16.
[2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 772--772
 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b
eav2$hours/24))[] 
[2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182]
[2183] [2184] [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193]
[2194]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2418--2418
 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", 
"F"),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2422--2422
 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", 
"F"),[] 
[2195] [2196] [2197] [2198]
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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
[2199] [2200] [2201]
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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 ,
[2202] [2203]
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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
[2204] [2205] [2206]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3234--3234
 []            \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL
SE, ...)[] 
[2207]
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 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist =
 "exponential")[] 
[2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218]
[2219]
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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
[2220] [2221] [2222] [2223] [2224] [2225] [2226]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4658--4658
 []        \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n",
 ...)[] 
[2227] [2228] [2229]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4880--4880
 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model 
= FALSE, 
[2230] [2231] [2232] [2233] [2234] [2235] [2236] [2237] [2238] [2239] [2240]
[2241] [2242] [2243]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 5930--5930
 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP
ACK = FALSE) 
[2244]
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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") 
[2245] [2246]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.npk}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6151 ...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.6151 ...sical N, P, K Factorial Experiment}{npk}
                                                   [2247] [2248] [2249]
[2250] [2251] [2252]
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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)))[] 
[2253]
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 []     \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr
ellis"))[] 
[2254] [2255] [2256] [2257] [2258] [2259]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7098--7098
 []\T1/pcr/m/n/9 nlmod <- nls(y ~  Const + A * exp(B * x), start=list(Const=100
, A=10, B=1))[] 
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 []     \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c
auchit"))[] 
[2260]
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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 ) =
[2261]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7263--7263
 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da
ta = housing)[] 
[2262] [2263]
Underfull \hbox (badness 1389) in paragraph at lines 7372--7375
[]\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,
[2264] [2265]
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 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam
p = "exact")[] 
[2266]
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 []        \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC
V"), ...)[] 
[2267] [2268] [2269] [2270] [2271] [2272]
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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
[2273] [2274]
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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
[2275] [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] [2284] [2285]
[2286] [2287] [2288] [2289] [2290] [2291] [2292] [2293] [2294]
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 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS
E, ...)[] 
[2295]
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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 ,
Underfull \hbox (badness 1158) in paragraph at lines 9656--9659
[]\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),
[2296]
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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$double
.eps^0.25,[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 9743--9743
 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub
le.eps^0.25)[] 
[2297] [2298] [2299] [2300] [2301] [2302] [2303] [2304] [2305] [2306] [2307]
[2308] [2309]) (./Matrix-pkg.tex [2310]
Chapter 17.
Underfull \hbox (badness 10000) in paragraph at lines 35--38
[]\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
[2311]
Underfull \hbox (badness 1769) in paragraph at lines 89--92
[]\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
[2312]
Underfull \hbox (badness 2229) in paragraph at lines 153--156
[]\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
Underfull \hbox (badness 1147) in paragraph at lines 153--156
\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
[2313]
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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
[2314] [2315]
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 []   \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym
metry property[] 
[2316]
Underfull \hbox (badness 5119) in paragraph at lines 488--492
[]\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
Overfull \hbox (4.38043pt too wide) in paragraph at lines 522--522
 []\T1/pcr/m/n/9 s1 <- bandSparse(13, k = -c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 524--524
 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k =  c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
[2317]
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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)],[] 
[2318]
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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:[] 
Overfull \hbox (96.18033pt too wide) in paragraph at lines 648--648
 []\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 '[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 649--649
 []\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}"}.[] 
[2319]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 662--662
 []        \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)]),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 668--668
 []\T1/pcr/m/n/9 l12 <- replicate(12, matrix(rpois(16, lambda = 6.4), 4,4), sim
plify=FALSE)[] 
[2320]
Underfull \hbox (badness 1874) in paragraph at lines 737--740
[]\T1/ptm/m/n/10 The orig-i-nal LA-PACK source code, in-clud-ing doc-u-men-ta-t
ion; [][]$\T1/pcr/m/n/10 https : / / netlib . org /
[2321] [2322]
Underfull \hbox (badness 1107) in paragraph at lines 860--865
\T1/ptm/m/n/10 sity'' of []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/
10 y[]\T1/ptm/m/n/10 , see e.g., the \T1/phv/m/n/10 R \T1/ptm/m/n/10 code in []
\T1/pcr/m/n/10 selectMethod(cbind2,
Underfull \hbox (badness 10000) in paragraph at lines 903--908
[]\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:
[2323]
Overfull \hbox (72.78088pt too wide) in paragraph at lines 967--967
 []\T1/pcr/m/n/10 ##   solve(a, b, system = c("A","LDLt","LD","DLt","L","Lt","D
","P","Pt"), ...)[] 
[2324]
Underfull \hbox (badness 3612) in paragraph at lines 1054--1057
[]\T1/pcr/m/n/10 signature(from = "CHMfactor", to = "pMatrix") []\T1/ptm/m/n/10
 re-turns the per-mu-ta-tion
[2325]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cho
l}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1154 ...- 'Matrix' S4 Generic and Methods}{chol}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.chol.1}) has been already used, duplic
ate ignored
<to be read again> 
                   \relax 
l.1154 ...- 'Matrix' S4 Generic and Methods}{chol}
                                                   [2326] [2327]
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 []\T1/pcr/m/n/9 ## --> see Cholesky() and its examples, for the pivot structur
e & factorization[] 
[2328]
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 []\T1/pcr/m/n/10 Cholesky(A, perm = TRUE, LDL = !super, super = FALSE, Imult =
 0, ...) 
[2329]
Underfull \hbox (badness 2277) in paragraph at lines 1424--1427
[]\T1/ptm/m/n/10 This is a generic func-tion with spe-cial meth-ods for dif-fer
-ent types of ma-tri-ces. Use
[2330]
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 []\T1/pcr/m/n/9 ## hence, the identical() check *should* work, but fails on so
me GOTOblas:[] 
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 []\T1/pcr/m/n/9 dq <- function(ch) paste(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/p
cr/m/n/9 '\T1/pcr/m/n/9 ,ch,\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 , sep="") ## dQuote(<UTF-8>) gives bad plots[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 1520--1520
 []\T1/pcr/m/n/9 (opts <- expand.grid(perm = c(TRUE,FALSE), LDL = c(TRUE,FALSE)
, super = c(FALSE,TRUE)))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1529--1529
 []\T1/pcr/m/n/9 str(re <- lapply(rr, expand), max.level=2) ## each has a \TS1/
pcr/m/n/9 '\T1/pcr/m/n/9 P\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and a \TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 L\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 matrix[] 
[2331]
Underfull \hbox (badness 10000) in paragraph at lines 1565--1572
[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("Cholesky", ...) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 4673) in paragraph at lines 1565--1572
[]\T1/pcr/m/n/10 new("BunchKaufman", ...)[]\T1/ptm/m/n/10 , etc, or rather by c
alls of the form [][][]\T1/pcr/m/n/10 chol[][][](pm) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 1783) in paragraph at lines 1600--1604
[]\T1/ptm/m/n/10 Both these fac-tor-iza-tions can \T1/ptm/m/it/10 di-rectly \T1
/ptm/m/n/10 be treated as (tri-an-gu-lar) ma-tri-ces, as they ex-tend
[2332]
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\T1/ptm/m/n/10 ply an $\OML/cmm/m/it/10 n \OMS/cmsy/m/n/10 ^^B \OML/cmm/m/it/10
 n$ \T1/ptm/m/n/10 nu-meric [][][]\T1/pcr/m/n/10 matrix[][][][]\T1/ptm/m/n/10 .
 Hence, for com-pat-i-bil-ity, the []\T1/pcr/m/n/10 "Cholesky" []\T1/ptm/m/n/10
 and
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colSums})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1657 ... Row and Column Sums and Means}{colSums}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.colSums.1}) has been already used, dup
licate ignored
<to be read again> 
                   \relax 
l.1657 ... Row and Column Sums and Means}{colSums}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.colMeans}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.1658 \aliasA{colMeans}{colSums}{colMeans}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.rowMeans}) has been already used, duplicate i
gnored
<to be read again> 
                   \relax 
l.1681 \aliasA{rowMeans}{colSums}{rowMeans}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.rowSums}) has been already used, duplicate ig
nored
<to be read again> 
                   \relax 
l.1694 \aliasA{rowSums}{colSums}{rowSums}
                                          [2333pdfTeX warning (ext4): destinati
on with the same identifier (name{Rfn.rowMeans,diagonalMatrix.Rdash.method}) ha
s been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.1733 ## S4 method for signature 'CsparseMatrix'
                                                 pdfTeX warning (ext4): destina
tion with the same identifier (name{Rfn.rowSums,diagonalMatrix.Rdash.method}) h
as been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.1733 ## S4 method for signature 'CsparseMatrix'
                                                 ]
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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
[2334] [2335]
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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
[2336] [2337] [2338] [2339] [2340] [2341]
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[]\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
[2342] [2343] [2344]
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[]\T1/pcr/m/n/10 signature(from = "dgTMatrix", to = "matrix")[]\T1/ptm/m/n/10 ,
 and typ-i-cally co-er-cion
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[]\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
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[]\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
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[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 dgCMatrix[][][] []\T1/ptm/m/n/10 or
 the su-per-classes [][][]\T1/pcr/m/n/10 dsparseMatrix[][][] []\T1/ptm/m/n/10 a
nd [][][]\T1/pcr/m/n/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 ;
[2345]
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 []    \T1/pcr/m/n/10 .trDiagonal(n, x = 1,            uplo = "U", unitri=TRUE,
 kind)[] 
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[]\T1/ptm/m/n/10 integer spec-i-fy-ing the di-men-sion of the (square) ma-trix.
 If miss-ing,
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[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 .symDiagonal []\T1/ptm/m/n/10 ([]\T1/pcr/
m/n/10 .trDiagonal[]\T1/ptm/m/n/10 ), the re-sult-ing sparse
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[][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 (or [][][]\T1/pcr/m
/n/10 triangularMatrix[][][][]\T1/ptm/m/n/10 ) will have slot []\T1/pcr/m/n/10 
uplo
[2346]
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[]\T1/pcr/m/n/10 Diagonal() []\T1/ptm/m/n/10 re-turns an ob-ject of class [][][
]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 or [][][]\T1/pcr/m/n/10 ldiMat
rix[][][] []\T1/ptm/m/n/10 (with ``su-per-class''
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[][][]\T1/pcr/m/n/10 CsparseMatrix[][][] []\T1/ptm/m/n/10 (the re-sult-ing clas
s de-pend-ing on []\T1/pcr/m/n/10 shape []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 k
ind[]\T1/ptm/m/n/10 ) rep-re-sen-ta-tion of
[2347]
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[]\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
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[]\T1/pcr/m/n/10 signature(x = "diagonalMatrix")[]\T1/ptm/m/n/10 : all these gr
oup meth-ods re-turn a
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[]\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 
: the re-sult is from class
[2348pdfTeX warning (ext4): destination with the same identifier (name{Rfn.coer
ce,diagonalMatrix,nMatrix.Rdash.method}) has been already used, duplicate ignor
ed
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.2975 
       ]
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[]\T1/pcr/m/n/10 (object = "diagonalMatrix")[]\T1/ptm/m/n/10 : Re-turns an ob-j
ect of S3 class
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[][][]\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
[2349] [2350]
Underfull \hbox (badness 10000) in paragraph at lines 3166--3168
[]\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 :
 this group con-tains
[2351] [2352]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 3312--3312
 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe
rent from the random one[] 
[2353]
Underfull \hbox (badness 2469) in paragraph at lines 3422--3425
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 3445--3450
[]\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 3445--3450
[][][]\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 3451--3460
\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 3451--3460
\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",
[2354] [2355]
Underfull \hbox (badness 10000) in paragraph at lines 3599--3603
[]\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 3599--3603
[]\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 ,
[2356]
Underfull \hbox (badness 1571) in paragraph at lines 3649--3652
[]\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 
: Re-turns (and stores) the
[2357] [2358]
Underfull \hbox (badness 10000) in paragraph at lines 3813--3818
[]\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
Underfull \hbox (badness 6961) in paragraph at lines 3813--3818
\T1/ptm/m/n/10 class []\T1/pcr/m/n/10 "dsparseMatrix" []\T1/ptm/m/n/10 or []\T1
/pcr/m/n/10 "RsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "compMatri
x" []\T1/ptm/m/n/10 by class
Underfull \hbox (badness 1400) in paragraph at lines 3825--3828
[]\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10
 : if []\T1/pcr/m/n/10 uplo ==
[2359]
Underfull \hbox (badness 10000) in paragraph at lines 3896--3898
[]\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 3938--3941
[]\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10
 , or []\T1/pcr/m/n/10 x = "dsyMatrix"
[2360]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3983--3983
 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ 
internally :[] 
[2361]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4116--4116
 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim 
= c(5L, 5L),[] 
[2362]
Underfull \hbox (badness 3635) in paragraph at lines 4179--4183
[]\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 4188--4191
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
[2363]
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[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n
/10 : the
[2364] [2365pdfTeX warning (ext4): destination with the same identifier (name{R
fn.coerce,dtrMatrix,dgeMatrix.Rdash.method}) has been already used, duplicate i
gnored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.4347 \item[\code{diag}:]
                           Object of class \code{"character"}. Must be]
Underfull \hbox (badness 2065) in paragraph at lines 4378--4382
[]\T1/pcr/m/n/10 signature(a = "dtrMatrix", b = "....")[]\T1/ptm/m/n/10 efficie
ntely use a ``for-ward-solve'' or
[2366] [2367] [2368] [2369]
Overfull \hbox (112.38031pt too wide) in paragraph at lines 4635--4635
 []\T1/pcr/m/n/9 str(jgl009 <- ## https://math.nist.gov/MatrixMarket/data/Harwe
ll-Boeing/counterx/counterx.html[] 
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 [] \T1/pcr/m/n/9 readHB(gzcon(url("https://www.cise.ufl.edu/research/sparse/RB
/Boeing/msc00726.tar.gz"))))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4646--4646
 []\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 4649--4649
 []\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)[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 4659--4659
 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume
nts to sparseMatrix():[] 
[2370] [2371] [2372] [2373]
Underfull \hbox (badness 10000) in paragraph at lines 4937--4942
[]\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 compMatrix[][][][]\T1/ptm/m/n/10 
, and the non-general vir-tual classes: [][][]\T1/pcr/m/n/10 symmetricMatrix[][
][][]\T1/ptm/m/n/10 ,
[2374]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5018--5018
 []\T1/pcr/m/n/9 if(isTRUE(try(require(graph)))) { ## super careful .. for "che
cking reasons" 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5020--5020
 []  \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 5024--5024
 []  \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE,
 dimnames=dns))[] 
[2375]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5031--5031
 []  \T1/pcr/m/n/9 a. <- sparseMatrix(i= 4:1, j=1:4, dimnames=list(n4,n4), give
C=FALSE) # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] 
[2376] [2377]
Underfull \hbox (badness 4120) in paragraph at lines 5170--5173
[]\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 5188--5188
 []\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 5208--5208
 []\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 5214--5214
 [] \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 5215--5215
 [] \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 5219--5219
 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor
der.col = adjustcolor("skyblue", 1/2))[] 
[2378]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5227--5227
 []\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 5230--5230
 []   \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi
ly zoom in and out[] 
[2379]
Underfull \hbox (badness 1817) in paragraph at lines 5326--5335
[]\T1/ptm/m/n/10 While ``row-indexing'' (of more than one row \T1/ptm/m/it/10 o
r \T1/ptm/m/n/10 us-ing []\T1/pcr/m/n/10 drop=FALSE[]\T1/ptm/m/n/10 ) stays wit
hin the
Underfull \hbox (badness 10000) in paragraph at lines 5368--5370
[]\T1/pcr/m/n/10 signature(x = "matrix", y = "indMatrix") []\T1/ptm/m/n/10 and 
other sig-na-tures (use
Underfull \hbox (badness 7081) in paragraph at lines 5370--5373
[]\T1/pcr/m/n/10 signature(from = "integer", to = "indMatrix")[]\T1/ptm/m/n/10 
: This en-ables typ-i-cal
Underfull \hbox (badness 4556) in paragraph at lines 5376--5383
[]\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : T
he list must have two
[2380]
Underfull \hbox (badness 3302) in paragraph at lines 5401--5404
[]\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : 
re-turn the kro-necker
[2381] [2382] [2383] [2384]
Overfull \hbox (138.78088pt too wide) in paragraph at lines 5776--5776
 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, tol1 = 8
 * tol, checkDN = TRUE, ...)[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 5782--5782
 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, checkDN 
= TRUE, ...)[] 
[2385]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5841--5841
 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if
 not "formally"[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5845--5845
 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g
eneric from base[] 
[2386]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5937--5937
 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even 
if not "formally"[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 5962--5962
 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames 
= FALSE) 
[2387] [2388]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6042--6042
 []\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 6043--6043
 []          \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 6050--6050
 []  \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di
mnames(Kmd)))[] 
[2389] [2390]
Underfull \hbox (badness 1062) in paragraph at lines 6204--6207
[]\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
Underfull \hbox (badness 6063) in paragraph at lines 6233--6236
[]\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
[2391]
Underfull \hbox (badness 2635) in paragraph at lines 6402--6407
[]\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 6402--6407
\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
[2392]
Underfull \hbox (badness 10000) in paragraph at lines 6410--6413
[]\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.,
Underfull \hbox (badness 10000) in paragraph at lines 6566--6576
[]\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 6566--6576
[][][]\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
[2393]
Underfull \hbox (badness 3179) in paragraph at lines 6648--6651
[]\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
[2394]
Underfull \hbox (badness 10000) in paragraph at lines 6751--6754
[]\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.,
[2395]
Underfull \hbox (badness 10000) in paragraph at lines 6830--6833
[]\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.,
[2396]
Underfull \hbox (badness 1430) in paragraph at lines 6904--6910
\T1/ptm/m/n/10 should be sig-nalled when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is
 sin-gu-lar. When []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar, []\T1/pcr/
m/n/10 lu(x,
[2397]
Underfull \hbox (badness 1675) in paragraph at lines 6929--6932
[]\T1/pcr/m/n/10 lu() []\T1/ptm/m/n/10 is a generic func-tion with spe-cial met
h-ods for dif-fer-ent types of ma-tri-ces. Use
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7001--7001
 []                                \T1/pcr/m/n/9 # q is a 0-based permutation o
f the columns[] 
[2398] [2399]
Underfull \hbox (badness 10000) in paragraph at lines 7141--7144
[]\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
,
[2400]
Underfull \hbox (badness 1490) in paragraph at lines 7163--7165
[]\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)
[2401] [2402]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.det}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7358 \aliasA{det}{Matrix-class}{det}
                                       [2403pdfTeX warning (ext4): destination 
with the same identifier (name{Rfn.coerce,Matrix,denseMatrix.Rdash.method}) has
 been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.7439 \item[dim]
                  \code{signature(x = "Matrix")}: extract matrix dimensions]
Underfull \hbox (badness 1337) in paragraph at lines 7446--7449
[]\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 7469--7471
[]\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This 
re-lies on a cor-rect
[2404]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.7532 ...*\%}{matrix-products}{.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.7629 ...A{crossprod}{matrix-products}{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.7723 ...tcrossprod}{matrix-products}{tcrossprod}
                                                  
Underfull \hbox (badness 1881) in paragraph at lines 7816--7822
\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
[2405]
Underfull \hbox (badness 10000) in paragraph at lines 7889--7892
[]\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 7892--7897
[]\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 7892--7897
[]\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 7897--7901
\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 7907--7908
[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-
[2406] [2407] [2408]
Underfull \hbox (badness 1062) in paragraph at lines 8087--8090
[]\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 8121--8124
[]\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
[2409]
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[]\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 <-
[2410] [2411]
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 []   \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[] 
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[]\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 .
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\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
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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.,
[2413]
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[]\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N
ote that these co-er-cions
[2414]
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[]\T1/ptm/m/n/10 fast sim-
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<to be read again> 
                   \relax 
l.8626 \HeaderA{norm}{Matrix Norms}{norm}
                                         pdfTeX warning (ext4): destination wit
h the same identifier (name{Rfn.norm.1}) has been already used, duplicate ignor
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                   \relax 
l.8626 \HeaderA{norm}{Matrix Norms}{norm}
                                          [2416]
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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/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 ,
[2417]
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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
[2418]
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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.,
[2419]
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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.,
[2420] [2421]
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op =
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=
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 =
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p =
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op =
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=
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=
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 =
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=
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 =
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op =
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=
[2422]
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 =
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p =
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op =
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=
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=
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=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop
 =
[2423]
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[]\T1/pcr/m/n/10 signature(x = "matrix", y = "pMatrix") []\T1/ptm/m/n/10 and ot
her sig-na-tures (use
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[]\T1/pcr/m/n/10 signature(from = "integer", to = "pMatrix")[]\T1/ptm/m/n/10 : 
This is en-ables typ-i-cal
[2424]
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[]\T1/pcr/m/n/10 signature(from = "pMatrix", to = "matrix")[]\T1/ptm/m/n/10 : c
o-er-cion to a tra-di-tional
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[]\T1/pcr/m/n/10 signature(x = "pMatrix", logarithm="logical")[]\T1/ptm/m/n/10 
: Since per-mu-ta-
Underfull \hbox (badness 3229) in paragraph at lines 9354--9358
\T1/ptm/m/n/10 trix; note that []\T1/pcr/m/n/10 solve(P) []\T1/ptm/m/n/10 is id
en-ti-cal to []\T1/pcr/m/n/10 t(P) []\T1/ptm/m/n/10 for per-mu-ta-tion ma-tri-c
es. See
[2425]
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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")),[] 
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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
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\T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro
m
[2426] [2427]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.qr}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9569 \aliasA{qr}{qr-methods}{qr}
                                   [2428]
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 []\T1/pcr/m/n/9 stopifnot(identical(dimnames(X), dnX))# some versions changed 
X\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s dimnames![] 
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 []\T1/pcr/m/n/9 qxrLA <- qr(m(Xr), LAPACK=TRUE) # => qr.fitted(), qr.resid() n
ot supported[] 
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 []\T1/pcr/m/n/9 ##----- rank-deficient ("singular") case ---------------------
---------------[] 
[2429]
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 []\T1/pcr/m/n/9 (X. <- drop0(Q. %*% R.[, qI], tol=tolE))## just = X, incl. cor
rect colnames[] 
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[]\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 
qr[][][](x, tol,
[2430]
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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
[2431]
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 []\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![] 
[2432]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rco
nd}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9893 ... the Reciprocal Condition Number}{rcond}
                                                   [2433]
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 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not
 have full rank[] 
[2434] [2435] [2436]
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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
[2437] [2438]
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[]\T1/ptm/m/n/10 numeric square Ma-trix (in-her-it-ing from class []\T1/pcr/m/n
/10 "Matrix"[]\T1/ptm/m/n/10 ) or tra-di-tional
[2439]
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 []                           \T1/pcr/m/n/9 z[order(Mod(z), decreasing=TRUE)]})
, tolerance = 1e-13),[] 
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 []\T1/pcr/m/n/9 ## For the faint of heart, we provide Schur() also for traditi
onal matrices:[] 
[2440]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.sol
ve}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10470 \aliasA{solve}{solve-methods}{solve}
                                            
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 []\T1/pcr/m/n/10 ## solve(a, b, ...) # the two-argument version, almost always
 preferred to 
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 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", "
D", "P", "Pt"), ...)[] 
[2441]
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 solve []\T1/ptm/m/n/10 meth-ods for a
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[]\T1/ptm/m/n/10 (for all []\T1/pcr/m/n/10 b[]\T1/ptm/m/n/10 ) work via []\T1/p
cr/m/n/10 as(a,
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[]\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 (
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[]\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 (
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\T1/pcr/m/n/10 sparse=FALSE, tol = .Machine$double.eps ) []\T1/ptm/m/n/10 : Che
cks if []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is sym-met-ric,
[2442]
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[]\T1/ptm/m/n/10 All these meth-ods first try Cholmod's
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[]\T1/ptm/m/n/10 all end up call-ing LA-PACK rou-tines
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[]\T1/ptm/m/n/10 works via []\T1/pcr/m/n/10 as(b,
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[]\T1/ptm/m/n/10 these meth-ods typ-i-cally use
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[]\T1/ptm/m/n/10 all work via []\T1/pcr/m/n/10 as(a,
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[][][]\T1/pcr/m/n/10 solve[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lu[][][
][]\T1/ptm/m/n/10 , and class doc-u-men-ta-tions [][][]\T1/pcr/m/n/10 CHMfactor
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 sparseLU[][][][]\T1/ptm/m/n/10 , 
and
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 []\T1/pcr/m/n/9 image(ia0 <- solve(a)) # checker board, dense [but really, a i
s 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[] 
[2443]
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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
[2444]
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[]\T1/ptm/m/n/10 should fac-tors have un-used lev-els dropped? The de-fault for
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[]\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
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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
[2445]
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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),[] 
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 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0,12),[] 
[2446] [2447]
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 []             \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = 
TRUE,[] 
[2448]
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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
[2449]
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[]\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"[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 11250--11250
 []\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 11251--11251
 []\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 11256--11256
 []\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 11259--11259
 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar
e consistent[] 
[2450]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 11282--11282
 []\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 11283--11283
 []\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 11309--11309
 []\T1/pcr/m/n/9 ## pointers example in converting from other sparse matrix rep
resentations.[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 11311--11311
 []   \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 11313--11313
 []  \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims =
 X@dimension)[] 
Underfull \vbox (badness 10000) has occurred while \output is active [2451]
Underfull \hbox (badness 6842) in paragraph at lines 11411--11414
[]\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
[2452]
Underfull \hbox (badness 10000) in paragraph at lines 11446--11450
[][][]\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
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr.Q}) ha
s been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11486 \aliasA{qr.Q}{sparseQR-class}{qr.Q}
                                            [2453] [2454]
Underfull \hbox (badness 10000) in paragraph at lines 11616--11618
[]\T1/pcr/m/n/10 signature(a = "sparseQR", b = "ANY")[]\T1/ptm/m/n/10 : For []\
T1/pcr/m/n/10 solve(a,b)[]\T1/ptm/m/n/10 , sim-ply uses
Overfull \hbox (58.38037pt too wide) in paragraph at lines 11644--11644
 [] \T1/pcr/m/n/9 qc  <- qr.coef  (qrm, y); qc. <- qr.coef  (qrm, y.) # 2nd fai
led in Matrix <= 1.1-0[] 
[2455]
Underfull \hbox (badness 5036) in paragraph at lines 11672--11674
[]\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case
 a
Underfull \hbox (badness 2970) in paragraph at lines 11783--11789
[]\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 11783--11789
\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 ,
[2456]
Underfull \hbox (badness 10000) in paragraph at lines 11834--11837
[]\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/
n/10 co-erces sparse
[2457]
Underfull \hbox (badness 10000) in paragraph at lines 11874--11879
[]\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 11889--11891
[][][]\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(*,
[2458] [2459]
Underfull \hbox (badness 2310) in paragraph at lines 12014--12020
[][][]\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,
[2460]
Underfull \hbox (badness 6188) in paragraph at lines 12105--12107
[]\T1/pcr/m/n/10 signature(from = "ddiMatrix", to = "symmetricMatrix")[]\T1/ptm
/m/n/10 : and many
[2461]
Underfull \hbox (badness 2591) in paragraph at lines 12131--12136
\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
Underfull \hbox (badness 2057) in paragraph at lines 12207--12209
[]\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.,
[2462] [2463]
Underfull \hbox (badness 6641) in paragraph at lines 12294--12297
[]\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 12338--12342
[]\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 12338--12342
\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
[2464] [2465]
Underfull \hbox (badness 7649) in paragraph at lines 12445--12447
[]\T1/ptm/m/n/10 a sparse ma-trix stored in triplet form, i.e., in-her-it-ing f
rom class
[2466] [2467]
Underfull \hbox (badness 10000) in paragraph at lines 12563--12565
[]\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , 
though
[2468]
Underfull \hbox (badness 1668) in paragraph at lines 12692--12695
[][][]\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
[2469]
Underfull \hbox (badness 7362) in paragraph at lines 12743--12745
[]\T1/ptm/m/n/10 any \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject, co-er-ca-ble to a
 sparse ma-trix (i.e., of sub-class of
[2470]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 12781--12781
 []\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 12782--12782
 []\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)[] 
[2471] [2472]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12936--12936
 []   \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C1, nWC, 1/
x))$modulus))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12941--12941
 []   \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C2, nWC, 1/
x))$modulus))[] 
[2473]
Underfull \hbox (badness 6910) in paragraph at lines 13147--13149
[]\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back
[2474] [2475]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13312--13312
 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero
s" to drop0()[] 
[2476]) (./boot-pkg.tex
Chapter 18.
[2477] [2478] [2479] [2480] [2481] [2482] [2483]
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"), 
[2484]
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-
[2485] [2486] [2487]
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 ,
[2488]
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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[2490] [2491]
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
[2492] [2493] [2494] [2495]
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-
[2496] [2497] [2498] [2499] [2500]
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), 
[2501] [2502] [2503]
Underfull \vbox (badness 10000) has occurred while \output is active [2504]
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),[] 
[2505]
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.
[2506] [2507] [2508]
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
[2509]
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 ,
[2510] [2511]
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
[2512] [2513] [2514] [2515] [2516]
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,[] 
[2517] [2518] [2519]
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 ,
[2520]
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)) 
[2521] [2522] [2523]
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 
[2524] [2525] [2526] [2527] [2528] [2529] [2530]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838
 []             \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q
 = NULL)[] 
[2531] [2532]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977
 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 =
 grav.z0[3])[] 
[2533] [2534] [2535] [2536]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259
 []\T1/pcr/m/n/9 #  To draw the jackknife-after-bootstrap plot for the head siz
e data as in 
[2537] [2538]
Underfull \hbox (badness 10000) in paragraph at lines 4362--4364
[]\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o
f
Underfull \hbox (badness 1430) in paragraph at lines 4371--4375
\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the
r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a
re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to
[2539] [2540] [2541] [2542] [2543] [2544] [2545] [2546] [2547]
Underfull \hbox (badness 3000) in paragraph at lines 4959--4962
[]\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put 
of a call to
[2548] [2549] [2550] [2551]
Underfull \hbox (badness 2293) in paragraph at lines 5238--5241
[]\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the 
boot-strap
Underfull \hbox (badness 1668) in paragraph at lines 5238--5241
\T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl
os-est to
[2552]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317
 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat
a = grav1[, 2])[] 
[2553] [2554] [2555] [2556] [2557] [2558] [2559] [2560]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866
 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c
ity.sp1$spa[1][] 
[2561]
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
[2562]
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
[2563] [2564] [2565] [2566]
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). 
[2567] [2568]
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[] 
[2569] [2570] [2571]
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
[2572] [2573]
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),[] 
[2574] [2575] [2576] [2577] [2578] [2579] [2580] [2581]) (./class-pkg.tex
[2582]
Chapter 19.
[2583] [2584] [2585] [2586] [2587] [2588] [2589] [2590] [2591] [2592] [2593]
[2594] [2595] [2596] [2597] [2598]) (./cluster-pkg.tex
Chapter 20.
[2599] [2600] [2601]
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]))[] 
[2602] [2603]
Underfull \vbox (badness 10000) has occurred while \output is active [2604]
[2605]
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,
 ...)[] 
[2606] [2607]
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)[] 
[2608]
Underfull \hbox (badness 3078) in paragraph at lines 691--694
[]\T1/ptm/m/n/10 Setting this to []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 saves 
mem-ory (and hence time), but dis-ables
[2609] [2610]
Underfull \hbox (badness 2941) in paragraph at lines 791--794
[][][]\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 ,
[2611]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 834--834
 []\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 881--883
[]\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p
le, see
[2612]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 946--946
 []     \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code
=3), ...)[] 
[2613]
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,
[2614] [2615]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1121--1121
 []        \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 1138--1138
 []\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 [2616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1176--1176
 []\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 1208--1212
[]\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
[2617]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1284--1284
 []          \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 1290--1290
 []             \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin
t variability."),[] 
[2618] [2619] [2620]
Underfull \hbox (badness 10000) in paragraph at lines 1477--1480
Underfull \hbox (badness 10000) in paragraph at lines 1494--1498
[][][]\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 1518--1518
 []\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 1528--1528
 []  \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i
dent. only points[] 
[2621]
Underfull \hbox (badness 5741) in paragraph at lines 1568--1571
[]\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
[2622]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1637--1637
 []      \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa
rnType,[] 
[2623]
Underfull \hbox (badness 1552) in paragraph at lines 1686--1688
[]\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 1699--1703
[]\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 1699--1703
\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
[2624]
Underfull \hbox (badness 1540) in paragraph at lines 1775--1783
\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 =
[2625]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1867--1867
 []\T1/pcr/m/n/9 summary(dfl2 <- daisy(flower, type = list(asymm = c(1, 3), ord
ratio = 7)))[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 1886--1886
 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st
and = FALSE, 
[2626] [2627] [2628] [2629] [2630]
Underfull \hbox (badness 10000) in paragraph at lines 2207--2210
Underfull \hbox (badness 3179) in paragraph at lines 2221--2227
[][][]\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.
[2631] [2632]
Underfull \hbox (badness 10000) in paragraph at lines 2379--2382
[][][]\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 ,
[2633]
Underfull \hbox (badness 1292) in paragraph at lines 2447--2450
[]\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
[2634]
Underfull \hbox (badness 6675) in paragraph at lines 2456--2458
[]\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 2479--2482
[][][]\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 ,
[2635] [2636]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 2608--2608
 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES 
= FALSE, ...) 
[2637]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 2655--2655
 []  \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k
 <= k, table(cl.k) >= 2)[] 
[2638]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2760--2760
 []\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 ):[] 
[2639]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 2839--2839
 []    \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5"
, "faster"),[] 
[2640] [2641] [2642]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3068--3068
 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro
und (1, 16):[] 
[2643] [2644]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3171--3171
 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co
l.axis = "red")[] 
[2645] [2646] [2647]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 3367--3367
 []           \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x
$ac, digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3368--3368
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2648]
Underfull \hbox (badness 10000) in paragraph at lines 3435--3438
[]\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m
/n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <-
[2649]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 3485--3485
 []           \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc,
 digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3486--3486
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2650] [2651] [2652]
Underfull \hbox (badness 10000) in paragraph at lines 3671--3674
[]\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 3671--3674
\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
[2653]
Underfull \hbox (badness 10000) in paragraph at lines 3734--3739
[][][]\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 ,
[2654]
Underfull \hbox (badness 1748) in paragraph at lines 3796--3801
\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 3808--3811
[][][]\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 ,
[2655] [2656] [2657]
Underfull \hbox (badness 10000) in paragraph at lines 3993--3996
[][][]\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 4024--4027
[][][]\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 ,
[2658]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 4077--4077
 []      \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right =
 TRUE, ...)[] 
[2659]
Underfull \hbox (badness 2035) in paragraph at lines 4088--4090
[]\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
[2660] [2661] [2662]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 4281--4281
 []     \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 4283--4283
 []     \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat
 = TRUE, ...)[] 
[2663] [2664]
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[] 
[2665] [2666] [2667] [2668] [2669] [2670] [2671]
Underfull \hbox (badness 10000) in paragraph at lines 4823--4829
[]\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 4839--4841
[]\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 4852--4852
 []\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 4854--4854
 []\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)$id.med[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4864--4864
 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7  clear "outlier"s  or "wrong group" o
bservations:[] 
[2672]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4868--4868
 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? -
- Robust range:[] 
[2673]) (./codetools-pkg.tex [2674]
Chapter 21.
Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16
 []           \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch
 = FALSE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17
 []           \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = 
!all,[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 18--18
 []           \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress
Undefined,[] 
[2675]
Underfull \hbox (badness 10000) in paragraph at lines 65--70
[]\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage
Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply
[2676]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 119--119
 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e
nterInternal,[] 
[2677] [2678] [2679]) (./foreign-pkg.tex [2680]
Chapter 22.
Underfull \hbox (badness 10000) in paragraph at lines 33--37
[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
Underfull \hbox (badness 10000) in paragraph at lines 33--37
\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\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 .
[2681]
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
[2682] [2683]
Underfull \hbox (badness 3601) in paragraph at lines 237--245
[]\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 ,
[2684]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 295--295
 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates =
 FALSE, 
[2685] [2686] [2687]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 461--461
 []          \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t
o.data.frame,[] 
[2688]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 462--462
 []          \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen
d", "no"),[] 
Underfull \hbox (badness 2846) in paragraph at lines 505--514
[]\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 505--514
\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 505--514
\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,
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[]\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with
 du-
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\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
[2689]
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[]\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / 
en-[]us / windows / win32 / intl /
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[]\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute
[2690]
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 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg
ument settings.[] 
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 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to 
R factor labels) are uncomplete,[] 
[2691]
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 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ
ate variables[] 
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 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt
h=w), "\n"))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 668--668
 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, 
collapse="")[] 
[2692] [2693]
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 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f
oreign")[1])[] 
[2694]
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[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
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\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p
cr/m/n/10 https : / / support .
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\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
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\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2695]
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 []  \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G
lobalEnv) 
[2696]
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 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute
(x))) 
[2697] [2698]
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[][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase 
/ format / data _ types .
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 []          \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", 
"codes"))[] 
[2699] [2700]
Underfull \hbox (badness 10000) in paragraph at lines 1270--1276
[]\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig
n:::writeForeignStata[]\T1/ptm/m/n/10 ,
[2701]
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[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid
e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET
[2702]) (./lattice-pkg.tex
Chapter 23.
[2703]
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\T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [
][]$\T1/pcr/m/n/10 http : / / web . archive . org /
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\T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / 
ms / departments / sia /
[2704] [2705]
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 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 290--290
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.xyplot"),[] 
[2706]
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 []        \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul
t.dotplot"),[] 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 305--305
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.barchart"),[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 313--313
 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.stripplot"),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 334--334
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 338--338
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.bwplot"),[] 
[2707] [2708] [2709] [2710]
Underfull \hbox (badness 1221) in paragraph at lines 650--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
[2711] [2712] [2713] [2714]
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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.
[2715]
Underfull \hbox (badness 1661) in paragraph at lines 1099--1105
[]\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
[2716] [2717]
Underfull \hbox (badness 1097) in paragraph at lines 1225--1227
[]\T1/ptm/m/n/10 Logical flag, whether leg-end should have a
Underfull \hbox (badness 1917) in paragraph at lines 1239--1240
[]\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to
[2718] [2719] [2720]
Underfull \hbox (badness 1540) in paragraph at lines 1479--1485
[]\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 ,
[2721]
Underfull \hbox (badness 10000) in paragraph at lines 1566--1583
[][][]\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 ,
[2722]
Underfull \vbox (badness 10000) has occurred while \output is active [2723]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 1671--1671
 []                  \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar
dSprays$rowpos))),[] 
Underfull \hbox (badness 2012) in paragraph at lines 1725--1727
[]\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
[2724]
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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
Underfull \hbox (badness 10000) in paragraph at lines 1825--1827
[]\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix
 An-drews
[2725] [2726] [2727] [2728]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2071--2071
 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl
ot"),[] 
[2729]
Underfull \hbox (badness 10000) in paragraph at lines 2141--2144
[]\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 2141--2144
[]\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs
t checked. If
[2730] [2731] [2732]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 2345--2345
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 2349--2349
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.qqmath"),[] 
[2733] [2734] [2735] [2736] [2737]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 2689--2689
 []          \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev
elplot.raster")[] 
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 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl
ot"),[] 
[2738] [2739]
Underfull \hbox (badness 2913) in paragraph at lines 2791--2796
[]\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 2791--2796
[]\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
[2740]
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[]\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 2925--2927
[]\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] 
[]\T1/ptm/m/n/10 when
Underfull \hbox (badness 1609) in paragraph at lines 2977--2983
[]\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 2977--2983
\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 2977--2983
\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
[2741]
Underfull \hbox (badness 2486) in paragraph at lines 3001--3005
[]\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
[2742]
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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 3105--3105
 []      \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 3106--3106
 []      \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite
 = TRUE),[] 
[2743]
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 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
cloud"),[] 
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 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.wireframe"),[] 
[2744]
Underfull \hbox (badness 2913) in paragraph at lines 3187--3194
[]\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 3187--3194
[]\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
[2745] [2746] [2747]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.parallel}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.3475 \aliasA{parallel}{B\_08\_splom}{parallel}
                                                 [2748]
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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 3540--3540
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.parallel"),[] 
[2749] [2750] [2751] [2752] [2753]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3876--3876
 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt(
var(x))) 
[2754] [2755]
Underfull \hbox (badness 2277) in paragraph at lines 3970--3974
[]\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
[2756]
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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
[2757]
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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 4153--4157
[]\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
[2758]
Underfull \hbox (badness 5161) in paragraph at lines 4218--4222
[]\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 4218--4222
\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
[2759] [2760]
Underfull \hbox (badness 1067) in paragraph at lines 4336--4346
[]\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 4336--4346
[]\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
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[]\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
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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
[2761] [2762] [2763] [2764] [2765]
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 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab
 = "Height")[] 
[2766] [2767]
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Underfull \hbox (badness 10000) in paragraph at lines 4955--4958
[]\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 .
[2769] [2770]
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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
[2771] [2772] [2773] [2774] [2775]
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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],[] 
[2776]
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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
[2777]
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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
[2778] [2779]
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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",[] 
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 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
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 []                 \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi
ch.panel",[] 
[2780]
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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
[2781]
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\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
[2782] [2783]
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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 ,
[2784]
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[2786]
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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-
[2787] [2788]
Underfull \hbox (badness 3601) in paragraph at lines 6334--6339
[]\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
[2789]
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 []             \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co
lors")$palette,[] 
[2790] [2791]
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[]\T1/pcr/m/n/10 at []\T1/ptm/m/n/10 can be a nu-meric vec-tor, []\T1/pcr/m/n/1
0 col.regions []\T1/ptm/m/n/10 a vec-tor of col-ors, and
[2792]
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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/pcr/m/n/10 shade.colors.palette []\T1/ptm/m/n/10 func-tion should re-turn
 a valid color. The
[2793] [2794] [2795] [2796] [2797]
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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
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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
[2800] [2801]
Underfull \hbox (badness 10000) in paragraph at lines 7221--7224
\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
[2802] [2803]
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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
[2804]
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 []                  \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta
ils.n = 50))[] 
[2805] [2806]
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[]\T1/ptm/m/n/10 ig-nores these. For types "r" and "smooth", these are passed o
n to
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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
[2807]
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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),[] 
[2808]
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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, ..., ident
ifier, name.type)[] 
[2809] [2810] [2811]
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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")[] 
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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
[2812] [2813] [2814] [2815] [2816] [2817] [2818] [2819]
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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
[2820] [2821]
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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, ...)[] 
[2822]
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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
[2823]
Underfull \hbox (badness 1515) in paragraph at lines 8814--8818
[]\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti
es. If used with
[2824] [2825]
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[]\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr
ibed in
[2826]
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 []                \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b
ottom$labels$labels)[] 
[2827] [2828]
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 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su
nspot.year)),[] 
[2829]
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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,
[2830] [2831] [2832] [2833] [2834] [2835] [2836]
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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 ,
[2837] [2838] [2839]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.melanoma}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9923 \aliasA{melanoma}{H\_melanoma}{melanoma}
                                                [2840] [2841] [2842]
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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),[] 
[2843] [2844]) (./mgcv-pkg.tex
Chapter 24.
[2845] [2846]
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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,[] 
[2847]
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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.
[2848] [2849] [2850] [2851]
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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 ,
[2852]
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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)+[] 
[2853] [2854] [2855]
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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
[2856] [2857]
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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
[2858] [2859]
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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
[2860]
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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).
[2861]
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[2863] [2864] [2865] [2866] [2867] [2868] [2869]
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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$h[ind])
,lwd=2,col=i)[] 
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 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights=
d,data=surv)[] 
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[2872]
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 []  \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid),
 initial = 0,[] 
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 []    \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][
nrow(um)] <- 1[] 
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 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter
polate to te[] 
[2874] [2875] [2876] [2877] [2878] [2879]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1937--1937
 []\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)[] 
[2880] [2881] [2882] [2883]
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 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str
ict=FALSE) 
[2884] [2885] [2886] [2887] [2888] [2889] [2890]
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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
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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.
[2891] [2892] [2893]
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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
[2894] [2895]
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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 ,
[2896]
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[2900] [2901]
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 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1
e-07, maxit = 200, 
[2902] [2903] [2904] [2905] [2906] [2907]
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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,...)[] 
[2908] [2909] [2910] [2911] [2912] [2913] [2914] [2915]
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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
[2916] [2917]
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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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[2919] [2920]
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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)+[] 
[2928] [2929] [2930]
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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, 
[2931] [2932]
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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
[2933]
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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
[2934] [2935]
Underfull \hbox (badness 5970) in paragraph at lines 5262--5268
[][][]\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 .
[2936]
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[2938] [2939] [2940]
Underfull \hbox (badness 1577) in paragraph at lines 5614--5617
[]\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
[2941] [2942] [2943] [2944] [2945] [2946] [2947]
Underfull \hbox (badness 6708) in paragraph at lines 6010--6011
[]\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
[2948] [2949]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 6059--6059
 []  \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d
ata. A simple plotting[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6084--6084
 []      \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j]
,lty=lty[j])[] 
[2950]
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 []  \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo
r comparison[] 
[2951] [2952]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6235--6235
 []       \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r
norm(100)*.4[] 
[2953] [2954] [2955] [2956] [2957]
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 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n
a.action, 
[2958]
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 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona
lize=FALSE)[] 
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[2959] [2960] [2961]
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[2963] [2964]
Overfull \hbox (72.78088pt too wide) in paragraph at lines 6914--6914
 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999,
all.derivs=FALSE) 
[2965] [2966] [2967] [2968]
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[2971] [2972]
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 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want
 to rule the world.",[] 
Overfull \hbox (36.78088pt too wide) in paragraph at lines 7373--7373
 []      \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y),
nthreads=1)[] 
[2973] [2974] [2975] [2976] [2977] [2978] [2979] [2980] [2981]
Underfull \hbox (badness 1242) in paragraph at lines 7916--7917
[]\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra
nts EP/K005251/1 and
[2982] [2983]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 8003--8003
 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt
ion with bam...[] 
[2984] [2985]
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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)[] 
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[2987] [2988] [2989] [2990] [2991] [2992] [2993] [2994] [2995] [2996] [2997]
[2998] [2999] [3000] [3001] [3002] [3003]
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[3005]
Underfull \hbox (badness 10000) in paragraph at lines 9310--9313
[]\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 9310--9313
[]\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 9310--9313
[]\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 .
[3006]
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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 ,
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[]\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
[3007] [3008] [3009]
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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 n=100,n2=40,n3=3,pers=FALSE,theta=30,phi=30,jit=FALS
E,xlab=NULL,[] 
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 []         \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi
ds=FALSE,[] 
[3010] [3011] [3012]
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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
[3013] [3014] [3015] [3016]
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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 9997--10001
[]\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-
[3017] [3018] [3019]
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 []        \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL
L,...)[] 
[3020] [3021]
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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))[] 
[3022]
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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[] 
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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
[3025]
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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
[3026]
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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,
[3027] [3028] [3029]
Underfull \hbox (badness 1253) in paragraph at lines 10738--10740
[]\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,
[3030] [3031] [3032] [3033] [3034]
Underfull \hbox (badness 1946) in paragraph at lines 10991--10998
[]\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
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\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 10991--10998
\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 10999--11002
\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.
[3035]
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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)[] 
[3036]
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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 ,
[3037] [3038] [3039] [3040] [3041]
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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) 
[3042] [3043] [3044] [3045] [3046] [3047]
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 []  \T1/pcr/m/n/9 true <- mu + (del * sigma) * sinh((1/del) * asinh(qnorm(qq))
 + (eps/del))[] 
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 []\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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[3049]
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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
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 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, 
cov = TRUE,[] 
[3050]
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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-
[3051] [3052] [3053]
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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
[3054]
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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 12208--12220
[]\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
[3055]
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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 12225--12229
\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 ,
[3056] [3057] [3058]
Underfull \hbox (badness 6876) in paragraph at lines 12420--12426
[][][]\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
[3059]
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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
[3060] [3061]
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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
[3062]
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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)[] 
[3063]
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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/pcr/m/n/9 `\T1/
pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] 
[3064]
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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 12738--12740
\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
[3065] [3066]
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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
[3067] [3068]
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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[] 
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 []\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[] 
[3069] [3070]
Underfull \hbox (badness 10000) in paragraph at lines 13103--13104
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3071] [3072] [3073] [3074] [3075]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13353--13353
 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m
ethod="REML")[] 
[3076]
Underfull \hbox (badness 10000) in paragraph at lines 13414--13416
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3077] [3078]
Underfull \hbox (badness 10000) in paragraph at lines 13573--13576
[]\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 13573--13576
\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 13573--13576
[]\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"
[3079] [3080]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13659--13659
 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with
 2 variances[] 
[3081]
Underfull \hbox (badness 10000) in paragraph at lines 13704--13710
[]\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 13704--13710
[]\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-
[3082] [3083] [3084]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 13918--13918
 []\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...[] 
Underfull \vbox (badness 10000) has occurred while \output is active [3085]
Underfull \vbox (badness 10000) has occurred while \output is active [3086]
Underfull \hbox (badness 10000) in paragraph at lines 14021--14029
[][][]\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 14047--14048
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3087] [3088] [3089]
Underfull \hbox (badness 7613) in paragraph at lines 14192--14195
[]\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
[3090]
Underfull \hbox (badness 1546) in paragraph at lines 14213--14214
[]\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 14259--14259
 []\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")[] 
[3091] [3092] [3093]
Underfull \hbox (badness 3396) in paragraph at lines 14405--14408
[][][]\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 14450--14452
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3094] [3095] [3096] [3097] [3098] [3099]
Underfull \hbox (badness 10000) in paragraph at lines 14741--14743
[]\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see
Underfull \hbox (badness 10000) in paragraph at lines 14771--14775
[][][]\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[][][] [][]tprs[][][][]\T1/ptm/m/n/10 ,[
][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
cubic.regression.spline[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 p.spline[][
][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14771--14775
[][][]\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 14771--14775
[][][]\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 ,
[3100] [3101] [3102] [3103] [3104]
Underfull \hbox (badness 2158) in paragraph at lines 15061--15061
[]\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma-
trix from
[3105] [3106]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 15140--15140
 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0,
centre=FALSE)[] 
[3107] [3108]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 15274--15274
 []                  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars
"),...)[] 
[3109] [3110]
Underfull \hbox (badness 4846) in paragraph at lines 15405--15408
[]\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
[3111] [3112] [3113] [3114] [3115] [3116] [3117] [3118] [3119] [3120] [3121]
[3122] [3123] [3124] [3125] [3126] [3127] [3128] [3129] [3130]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 16623--16623
 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL,
unconditional=FALSE, ...)[] 
[3131]
Underfull \hbox (badness 1715) in paragraph at lines 16645--16646
[]\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
[3132] [3133] [3134]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 16835--16835
 []\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 16837--16837
 []\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 16839--16839
 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt=
NULL)[] 
[3135]
Underfull \hbox (badness 10000) in paragraph at lines 16859--16860
[]\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows
Underfull \hbox (badness 1668) in paragraph at lines 16859--16860
[]\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
[3136]
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[3138]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17047--17047
 []\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 17048--17048
 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun
ded in regions[] 
[3139]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17060--17060
 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val
ues, to check we[] 
[3140] [3141] [3142]) (./nlme-pkg.tex
Chapter 25.
[3143]
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
[3144]
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
[3145] [3146] [3147] [3148] [3149]
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,[] 
[3150] [3151]
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 ---------------------------
---------------[] 
[3152] [3153] [3154] [3155] [3156] [3157] [3158] [3159]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1085--1085
 []                  \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil
lary fissure"),[] 
[3160]
Underfull \hbox (badness 5446) in paragraph at lines 1147--1149
[]\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
[3161] [3162] [3163] [3164] [3165] [3166] [3167]
Underfull \hbox (badness 10000) in paragraph at lines 1630--1633
[][][]\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 
,
[3168]
Underfull \hbox (badness 3780) in paragraph at lines 1647--1649
[]\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
[3169] [3170] [3171] [3172] [3173]
Underfull \hbox (badness 2042) in paragraph at lines 1996--2002
\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 ,
[3174]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2058--2058
 []\T1/pcr/m/n/9 collapse(Pixel, collapse = 1)  # same as collapse(Pixel, colla
pse = "Dog")[] 
[3175]
Underfull \hbox (badness 1132) in paragraph at lines 2147--2149
[]\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac
ted us-ing the
[3176] [3177]
Underfull \hbox (badness 4168) in paragraph at lines 2258--2264
[][][]\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 ,
[3178]
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 []  \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3179] [3180] [3181] [3182] [3183] [3184] [3185] [3186]
Underfull \hbox (badness 10000) in paragraph at lines 2849--2853
[][][]\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 ,
[3187] [3188] [3189] [3190] [3191] [3192pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d
uplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.3193 ...trix(cs1, covariate = 1:4, corr = FALSE)
                                                  ] [3193] [3194] [3195]
[3196] [3197] [3198]
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[][][]\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 ,
[3199] [3200] [3201] [3202] [3203] [3204] [3205] [3206] [3207] [3208] [3209]
[3210] [3211] [3212] [3213] [3214] [3215] [3216] [3217] [3218] [3219] [3220]
[3221] [3222]
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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 ,
[3223] [3224] [3225] [3226] [3227] [3228] [3229]
Underfull \hbox (badness 10000) in paragraph at lines 5597--5600
[][][]\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 ,
[3230] [3231] [3232] [3233] [3234] [3235] [3236] [3237] [3238]
Underfull \hbox (badness 2799) in paragraph at lines 6103--6109
\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
[3239]
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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 ,
[3240]
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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 ,
[3241]
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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
[3242] [3243] [3244] [3245]
Underfull \hbox (badness 7133) in paragraph at lines 6566--6570
[]\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 ,
[3246]
Underfull \hbox (badness 10000) in paragraph at lines 6665--6671
[][][]\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 6692--6692
 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min
Scale = 0.001, 
[3247]
Underfull \hbox (badness 10000) in paragraph at lines 6730--6732
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3248] [3249] [3250] [3251]
Underfull \hbox (badness 10000) in paragraph at lines 7002--7009
[][][]\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 ,
[3252]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7020--7020
 []                \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla
ry fissure" ),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7025--7025
 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new )   # fixed and groups formulae extracted
 from object[] 
Underfull \hbox (badness 2875) in paragraph at lines 7047--7049
[]\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
[3253] [3254] [3255]
Underfull \hbox (badness 10000) in paragraph at lines 7262--7267
[][][]\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 ,
[3256] [3257] [3258]
Underfull \hbox (badness 1997) in paragraph at lines 7414--7422
[]\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 7414--7422
\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 7437--7440
[][][]\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 ,
[3259] [3260] [3261]
Underfull \hbox (badness 3354) in paragraph at lines 7653--7655
[]\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
[3262] [3263] [3264] [3265] [3266] [3267] [3268] [3269]
Underfull \hbox (badness 10000) in paragraph at lines 8170--8187
[][][]\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 8170--8187
[][][]\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 ,
Overfull \hbox (12.78088pt too wide) in paragraph at lines 8213--8213
 []    \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data 
= TRUE)[] 
[3270]
Underfull \hbox (badness 1642) in paragraph at lines 8222--8244
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o
f the form
[3271] [3272] [3273] [3274]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8487--8487
 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni
terEM = 25, 
Underfull \hbox (badness 10000) in paragraph at lines 8535--8537
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3275]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8579--8579
 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio
ns be printed[] 
[3276] [3277] [3278] [3279] [3280] [3281] [3282] [3283] [3284] [3285] [3286]
[3287]
Underfull \hbox (badness 10000) in paragraph at lines 9336--9343
[][][]\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 9347--9347
 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me
thod = "ML") 
[3288] [3289] [3290] [3291] [3292]pdfTeX warning (ext4): destination with the s
ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9698 ...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.9698 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                   [3293]
Underfull \hbox (badness 10000) in paragraph at lines 9718--9721
[]\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 9762--9765
[]\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 9762--9765
\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
[3294] [3295] [3296] [3297] [3298] [3299] [3300] [3301] [3302] [3303] [3304]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10442--10442
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights, 
[3305]
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[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o
f the form
[3306] [3307] [3308]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10647--10647
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
[3309] [3310]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 10798--10798
 []            \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma =
 NULL, ...)[] 
Underfull \hbox (badness 2213) in paragraph at lines 10809--10814
[]\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[][][]
[3311]
Underfull \hbox (badness 6961) in paragraph at lines 10831--10835
[]\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=
Underfull \hbox (badness 10000) in paragraph at lines 10850--10852
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3312] [3313] [3314] [3315]
Overfull \hbox (96.18033pt too wide) in paragraph at lines 11141--11141
 []\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 11142--11142
 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4
.0.0;  ("matrix" in older R)[] 
[3316] [3317] [3318] [3319] [3320] [3321]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11532--11532
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3322] [3323] [3324] [3325] [3326] [3327]
Underfull \hbox (badness 6268) in paragraph at lines 11919--11929
[][][]\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 ,
[3328] [3329] [3330] [3331]
Underfull \hbox (badness 10000) in paragraph at lines 12180--12186
[][][]\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 ,
[3332] [3333] [3334] [3335] [3336]
Underfull \hbox (badness 6876) in paragraph at lines 12502--12504
[]\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
[3337] [3338]
Underfull \hbox (badness 2452) in paragraph at lines 12658--12665
[][][]\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 ,
[3339]
Underfull \hbox (badness 10000) in paragraph at lines 12723--12729
[][][]\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 ,
[3340] [3341] [3342] [3343] [3344] [3345] [3346] [3347] [3348]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 13312--13312
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3349] [3350] [3351] [3352] [3353]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13677--13677
 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 
0, id = 0.05)[] 
[3354]
Underfull \hbox (badness 10000) in paragraph at lines 13704--13707
[]\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
[3355]
Underfull \hbox (badness 1838) in paragraph at lines 13747--13754
[]\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 13747--13754
[]\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 13804--13804
 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect,
 panel,[] 
[3356]
Underfull \hbox (badness 10000) in paragraph at lines 13811--13814
[]\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 13811--13814
[]\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
[3357]
Underfull \hbox (badness 10000) in paragraph at lines 13919--13922
[]\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
[3358] [3359]
Underfull \hbox (badness 10000) in paragraph at lines 14013--14015
[][][]\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 ,
[3360] [3361] [3362] [3363] [3364] [3365] [3366] [3367]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 14537--14537
 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female",
"Male","Male"),[] 
[3368] [3369] [3370] [3371] [3372] [3373] [3374] [3375] [3376]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.15190 ...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.15190 ...Extract Random Effects}{random.effects}
                                                   [3377] [3378] [3379]
[3380] [3381] [3382] [3383] [3384] [3385] [3386]
Underfull \hbox (badness 2126) in paragraph at lines 15830--15834
[]\T1/ptm/m/n/10 Charles F. Minto, Thomas W. Schnider and Steven L. Shafer (199
7). Phar-ma-coki-net-
[3387]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 15838--15838
 []\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 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 15857--15857
 []    \T1/pcr/m/n/9 stopifnot(all.equal(BSA, Wt^{0.425} * Ht^{0.725} * 0.00718
4, tol = 1.5e-5),[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 15858--15858
 []              \T1/pcr/m/n/9 all.equal(LBM, LBMfn(Wt, Ht, Sex),              
   tol = 7e-7)[] 
[3388]
Underfull \hbox (badness 1009) in paragraph at lines 15888--15897
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3389] [3390]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 16035--16035
 []          \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi
st = FALSE, ...)[] 
[3391] [3392] [3393] [3394] [3395]
Underfull \hbox (badness 10000) in paragraph at lines 16370--16376
[][][]\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 ,
[3396]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 16401--16401
 []         \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG
en, ...)[] 
[3397] [3398] [3399] [3400] [3401] [3402] [3403]
Underfull \hbox (badness 1728) in paragraph at lines 16889--16892
[]\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou
t-put in the
[3404] [3405] [3406] [3407] [3408]
Underfull \hbox (badness 1803) in paragraph at lines 17223--17232
\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 17223--17232
\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 17223--17232
\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)
[3409]
Underfull \hbox (badness 10000) in paragraph at lines 17294--17295
[]\T1/pcr/m/n/10 "Constant plus power of variance
Underfull \hbox (badness 10000) in paragraph at lines 17295--17296
[]\T1/pcr/m/n/10 "Constant plus proportion of variance
[3410] [3411] [3412] [3413]
Underfull \hbox (badness 10000) in paragraph at lines 17545--17553
[][][]\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 ,
[3414] [3415] [3416] [3417]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 17817--17817
 []\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 17819--17819
 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v
ariance function[] 
[3418] [3419] [3420] [3421] [3422] [3423]
Underfull \hbox (badness 10000) in paragraph at lines 18255--18265
[][][]\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 18255--18265
[][][]\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 ,
[3424]
Underfull \hbox (badness 3579) in paragraph at lines 18293--18298
\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
[3425]
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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
[3426]
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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
[3427]
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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
Underfull \hbox (badness 3579) in paragraph at lines 18483--18488
\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
[3428]
Underfull \hbox (badness 3579) in paragraph at lines 18546--18551
\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 18579--18588
[][][]\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 18579--18588
[][][]\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 ,
[3429]
Underfull \hbox (badness 3579) in paragraph at lines 18618--18623
\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
[3430] [3431]
Underfull \hbox (badness 1009) in paragraph at lines 18764--18773
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3432] [3433]
Underfull \hbox (badness 1009) in paragraph at lines 18896--18905
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3434] [3435] [3436] [3437] [3438] [3439] [3440] [3441] [3442]) (./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}
                                                   [3443]
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 []         \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored =
 FALSE,[] 
[3444] [3445] [3446]
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 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3447]
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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)[] 
[3448] [3449]
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 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3450]) (./rpart-pkg.tex
Chapter 27.
[3451] [3452] [3453] [3454]
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 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse =
 TRUE, ...)[] 
[3455] [3456] [3457] [3458]
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[]\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
[3459] [3460]
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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
[3461] [3462] [3463]
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"),[] 
[3464] [3465] [3466] [3467]
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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
[3468]
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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, 
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 []              \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate 
= 2, xval = 10,[] 
[3469] [3470] [3471] [3472] [3473] [3474] [3475]
Underfull \hbox (badness 1565) in paragraph at lines 1760--1763
[]\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 ',
[3476]
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 []     \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n =
 FALSE,[] 
[3477] [3478] [3479]) (./spatial-pkg.tex [3480]
Chapter 28.
[3481] [3482] [3483] [3484] [3485] [3486]
Underfull \hbox (badness 10000) in paragraph at lines 423--427
[3487] [3488] [3489] [3490] [3491] [3492] [3493] [3494] [3495] [3496] [3497]
[3498] [3499]) (./survival-pkg.tex [3500]
Chapter 29.
[3501] [3502]
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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[] 
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.[] 
[3503] [3504]
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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
[3505] [3506]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}
                                                   [3507]
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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)[] 
[3508]
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 []    \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog),
 lung)[] 
[3509] [3510] [3511]
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 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) #
2 year survival 
[3512]
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 []    \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan",
"II.Borgan"),[] 
[3513] [3514]
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 []   \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz
e=stratsizes,[] 
[3515] [3516] [3517]
Underfull \hbox (badness 1097) in paragraph at lines 1106--1108
[]\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi
al and negative-binomial data.
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1126--1126
 []\T1/pcr/m/n/9 ppois(4, 10.24153)     #chance of seeing 4 or fewer events wit
h large rate[] 
[3518] [3519]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1241--1241
 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat
um), data=infert) 
[3520]
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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.1308 ...erapy for Stage B/C colon cancer}{colon}
                                                  
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 []  \T1/pcr/m/n/10 cluster, ymin, ymax, timewt= c("n", "S", "S/G", "n/G", "n/G
2", "I"),[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 1408--1408
 []  \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke
epstrata=10, ...)[] 
[3522] [3523] [3524]
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 [] \T1/pcr/m/n/10 timewt = c("n", "S", "S/G", "n/G", "n/G2", "I"), cluster, in
fluence =0,[] 
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 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob
al=TRUE) 
[3525] [3526] [3527] [3528] [3529]
Underfull \hbox (badness 10000) in paragraph at lines 1964--1979
[]\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 +
[3530]
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[][][]\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 ,
[3531]
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 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix
=TRUE)[] 
[3532] [3533] [3534] [3535] [3536] [3537] [3538] [3539]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2717--2717
 [] \T1/pcr/m/n/9 [1] "extreme"     "logistic"    "gaussian"    "weibull"     "
exponential"[] 
[3540]
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 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, 
etype, 
[3541] [3542] [3543]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 2976--2976
 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t
df = 5,[] 
[3544] [3545] [3546]
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[3548]
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 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt
y(id), kidney) 
[3549]
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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 3366--3368
[]\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
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3377--3377
 []        \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar
csin"),[] 
[3550] [3551]
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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 )))[] 
[3552] [3553]
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 [] [] 
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[3555]
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 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential
ly the same.[] 
[3556] [3557] [3558] [3559] [3560] [3561] [3562]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4210--4210
 []                    \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 )))[] 
[3563] [3564]
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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))[] 
[3565]
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 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4369--4369
 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1])  # differences: yhat[2:
4] - yhat[1][] 
[3566] [3567]
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[3569] [3570] [3571]
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 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca
le=1,[] 
[3572] [3573] [3574]
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 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), 
collapse,[] 
[3575] [3576]
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 []\T1/pcr/m/n/9 mresid <- (lung$status-1) - predict(fit, type=\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 expected\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ) #Martingale resid[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5150--5150
 []  \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means
, na.rm=TRUE)[] 
[3577]
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 []\T1/pcr/m/n/9 pct <- 1:98/100   # The 100th percentile of predicted survival
 is at +infinity[] 
[3578]
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 []  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE
, ...)[] 
[3579]
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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
[3580] [3581] [3582]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 5512--5512
 []\T1/pcr/m/n/10 pseudo(fit, times, type, addNA=TRUE, data.frame=FALSE, minus1
=FALSE, ...) 
[3583]
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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)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5627--5627
 []\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[] 
[3584]
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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, ...)[] 
[3585] [3586]
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 []  \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year=
entry.dt),[] 
[3587]
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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)) +[] 
[3588] [3589] [3590] [3591] [3592] [3593] [3594]
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 []       \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe
tas")), ...)[] 
[3595] [3596] [3597]
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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
[3598] [3599] [3600] [3601] [3602]
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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)[] 
[3603] [3604]
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 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id
, timefix = TRUE) 
[3605]
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 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)]  # rem
ove duplicate times[] 
[3606]
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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.7224 ...ata from a soldering experiment}{solder}
                                                   [3607]
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 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1,
 col = 1, 
[3608] [3609] [3610] [3611] [3612] [3613]
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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,[] 
[3614] [3615] [3616] [3617]
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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 ),[] 
[3618] [3619] [3620] [3621]
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 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
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[]\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre
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by 1/2 years[] 
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10 survfit.coxph[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 survfit.object[][
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[3644]
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use concordance 
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t is
[3648]
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al trial plus[] 
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 set has data[] 
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i), data=pbc2)[] 
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[50] [1] [2] (./base-pkg.tex
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
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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
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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,
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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 ',
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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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[15]
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 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) 
# "absolute"[] 
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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/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F
ALSE) 
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[]\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac
le . com / cd / E19957-[]01 / 806-[]3568 / ncg _
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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
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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)[] 
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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
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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/pcr/m/n/9 tmp <- read.delim(file.path(R.home("share"), "zoneinfo", "zo
ne1970.tab"),[] 
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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/9 legend("topright", legend = paste("nu=", nus), col = nus + 2, 
lwd = 1, bty="n")[] 
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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/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
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 []             \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif
f")))[] 
[68]
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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/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",
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Underfull \hbox (badness 1796) in paragraph at lines 6184--6192
[]\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 : / /
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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/pcr/m/n/9 showC(NpNA)# but not always is {shows  \TS1/pcr/m/n/9 '\T1/pcr
/m/n/9 (R = NaN, I = NA)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 on some platforms}[] 
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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
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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"))[] 
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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)[] 
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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 ## curlGetHeaders("ftp://cran.r-project.org") ## ftp::// suppo
rt is vanishing[] 
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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)[] 
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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
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[][][]\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
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 []                 \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l
ength.out = 3),[] 
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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
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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
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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})[] 
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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"),[] 
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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
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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
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[]\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
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[]\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[] 
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 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling
 on both levels[] 
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[]\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
[155]
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 []\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(...))))[] 
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[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ 754-[]19
85$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
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\T1/pcr/m/n/10 org / wiki / IEEE _ 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr
/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _
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\T1/pcr/m/n/10 754-[]2019$[][]\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 :
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 []     \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA
ttributes"))[] 
[158]
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 []\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, ..[] 
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 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon
th.abb[5:9])) 
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[]\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
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Underfull \hbox (badness 10000) in paragraph at lines 11468--11471
[]\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
[167] [168] [169] [170] [171] [172]
Underfull \hbox (badness 2744) in paragraph at lines 11904--11906
[]\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
[173]
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 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12
52 loc.) | ....[] 
[174] [175] [176]
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[]\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
[177]
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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
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[]\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for
[178] [179] [180] [181]
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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 12557--12559
[]\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
[182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13375--13375
 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes.   Could provide 
a constructor[] 
[194] [195] [196] [197] [198] [199] [200] [201] [202] [203]
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[]\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
[204] [205]
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[]\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 =
[206] [207]
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[]\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See
[208] [209]
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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 ,
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[][][]$\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[] 
[210]
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 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode
 = "0777")[] 
[211]
Underfull \hbox (badness 10000) in paragraph at lines 14702--14705
[][][]\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 ,
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 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu
rsive = TRUE)[] 
[212]
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[]\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:[] 
[213]
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 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F
ALSE, 
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[]\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,
[214] [215] [216]
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 []       \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING) 
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 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING)[] 
[217] [218] [219] [220]
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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[] 
[221]
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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
[222]
Underfull \hbox (badness 6944) in paragraph at lines 15449--15452
[][][]\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 ,
[223]
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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),[] 
[224] [225]
Underfull \hbox (badness 10000) in paragraph at lines 15612--15614
[]\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)),[] 
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[]\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
[226]
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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
[227]
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[]\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(*,
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[]\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 15790--15798
[]\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
[228] [229]
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 []\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[] 
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[231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241]
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 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil
l a DLLInfoList[] 
[242] [243]
Underfull \hbox (badness 2418) in paragraph at lines 16863--16867
\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 ,
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[]\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
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[][][]\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 ,
[244] [245]
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[]\T1/ptm/m/n/10 The spe-cial case []\T1/pcr/m/n/10 bindtextdomain(NULL) []\T1/
ptm/m/n/10 calls C level
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[]\T1/pcr/m/n/10 textdomain(textdomain(NULL)) []\T1/ptm/m/n/10 for the pur-pose
 of flush-ing (i.e., emp-ty-ing) the
[246]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17075--17075
 []\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:[] 
[248] [249]
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 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F
ALSE, 
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[]\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][]
[] (or char-ac-ter string for
[250] [251] [252] [253]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17575--17575
 []  \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around 
"checking hack"[] 
[254]
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 []\T1/pcr/m/n/9 name.rex <- "(?<first>[[:upper:]][[:lower:]]+) (?<last>[[:uppe
r:]][[:lower:]]+)"[] 
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Overfull \hbox (0.78088pt too wide) in paragraph at lines 17660--17660
 []        \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F
ALSE)[] 
[256] [257] [258] [259]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18033--18033
 []\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))) 
[260]
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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"))[] 
[261] [262] [263]
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 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F
ALSE) 
[264] [265] [266] [267] [268]
Underfull \hbox (badness 1163) in paragraph at lines 18653--18655
[]\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 18661--18661
 []\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.[] 
[269]
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 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se
t = TRUE, 
[270]
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 []              \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,[] 
[271]
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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[] 
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 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share
 an environment:[] 
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 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi
ng "srcref" :[] 
[272] [273]
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 []\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):[] 
[274] [275] [276]
Underfull \hbox (badness 10000) in paragraph at lines 19194--19196
[]\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
[277] [278] [279] [280] [281]
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[]\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac
le . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[282] [283] [284]
Underfull \hbox (badness 4699) in paragraph at lines 19777--19780
[]\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 ,
[285] [286]
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 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = "
GMT")[] 
[287] [288] [289]
Underfull \hbox (badness 4739) in paragraph at lines 20040--20042
[]\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere
d, see
[290]
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 []\T1/pcr/m/n/9 isSymmetric(D3)                         # FALSE (as row and co
lumn names differ)[] 
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 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE  (as names are 
not checked)[] 
[291] [292] [293] [294] [295] [296] [297] [298] [299]
Underfull \hbox (badness 1975) in paragraph at lines 20709--20712
[]\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
[300] [301] [302] [303] [304] [305]
Underfull \hbox (badness 1077) in paragraph at lines 21124--21129
[]\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
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[][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p
tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs /
[306]
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[]\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 ,
[307]
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[]\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
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\T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It 
may be opened by
[308] [309]
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[]\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use
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[][][]\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 21390--21397
[]\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-
[310] [311]
Underfull \hbox (badness 10000) in paragraph at lines 21521--21528
[][][]\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 ,
[312]
Underfull \hbox (badness 10000) in paragraph at lines 21642--21646
[]\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
[313]
Underfull \hbox (badness 5161) in paragraph at lines 21712--21717
[]\T1/ptm/m/n/10 A small num-ber of files (some of the API header files) are di
s-tributed un-der the
Underfull \hbox (badness 6592) in paragraph at lines 21712--21717
\T1/ptm/m/n/10 LESSER GNU GEN-ERAL PUB-LIC LI-CENSE, ver-sion 2.1 or later. A c
opy of
Underfull \hbox (badness 5133) in paragraph at lines 21712--21717
\T1/ptm/m/n/10 this li-cense is in file `\T1/pcr/m/n/10 $R_SHARE_DIR/licenses/L
GPL-2.1\T1/ptm/m/n/10 ' and can be viewed
Underfull \hbox (badness 10000) in paragraph at lines 21712--21717
\T1/ptm/m/n/10 by []\T1/pcr/m/n/10 RShowDoc("LGPL-2.1")[]\T1/ptm/m/n/10 . Ver-s
ion 3 of the li-cense can be dis-played by
[314] [315] [316]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 21880--21880
 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
[317]
Underfull \hbox (badness 3343) in paragraph at lines 21945--21949
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/
m/n/10 for many more file han-dling func-tions and
[318] [319]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 22083--22083
 []          \T1/pcr/m/n/9 identical(L$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))),[] 
[320] [321]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 22205--22205
 []\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 22208--22208
 []\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 22255--22263
[]\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways 
be sup-
[322] [323]
Underfull \hbox (badness 2564) in paragraph at lines 22358--22361
[]\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 22395--22395
 []\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 Sys.setenv("LANGUAGE" = "es") # set the language for error/war
ning messages[] 
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 [] \T1/pcr/m/n/9 sg <- matrix(unlist(strsplit(strsplit(Sys.getlocale(), sep)[[
1]], "=")), nrow=2)[] 
[324] [325]
Underfull \hbox (badness 1400) in paragraph at lines 22575--22579
[][][]\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
[326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] [337]
[338]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 23419--23419
 []\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 23420--23420
 []        \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 23423--23423
 []\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)[] 
[339]
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 []\T1/pcr/m/n/9 match.arg(c("a", ""),  c("", NA, "bb", "abc"), several.ok=TRUE
) # |-->  "abc"[] 
[340]
Underfull \hbox (badness 1655) in paragraph at lines 23554--23558
[]\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion 
(also known as a `clo-sure'):
[341] [342] [343]
Underfull \hbox (badness 2277) in paragraph at lines 23803--23806
[]\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross\T1/ptm/m/n/10 products, [][]
[]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcross
prod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able.
[344] [345] [346] [347] [348] [349] [350] [351] [352]
Underfull \hbox (badness 1484) in paragraph at lines 24392--24400
[]\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 24392--24400
\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 /
[353] [354]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 24466--24466
 []      \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y =
 all,[] 
[355] [356] [357] [358] [359] [360] [361] [362]
Underfull \hbox (badness 1448) in paragraph at lines 25014--25022
[]\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 =
[363]
Underfull \hbox (badness 3849) in paragraph at lines 25129--25134
[]\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
[364]
Underfull \hbox (badness 2165) in paragraph at lines 25206--25212
[]\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,
Underfull \hbox (badness 1199) in paragraph at lines 25206--25212
\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 25206--25212
\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,
[365] [366] [367]
Underfull \hbox (badness 2237) in paragraph at lines 25369--25371
[]\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1
0 c("bytes", "chars",
[368] [369] [370]
Underfull \hbox (badness 6188) in paragraph at lines 25596--25599
[]\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
[371] [372] [373]
Underfull \hbox (badness 1521) in paragraph at lines 25781--25795
\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-
[374] [375] [376] [377]
Underfull \hbox (badness 2197) in paragraph at lines 26095--26099
[]\T1/ptm/m/n/10 Loading a names-pace should where pos-si-ble be silent, with s
tartup mes-sages given by
Underfull \hbox (badness 4048) in paragraph at lines 26095--26099
[]\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
[378]
Underfull \hbox (badness 2846) in paragraph at lines 26109--26113
[]\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 26109--26113
\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
Overfull \hbox (12.78088pt too wide) in paragraph at lines 26151--26151
 []\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 26155--26155
 []              \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk
gs"))[] 
[379]
Underfull \hbox (badness 10000) in paragraph at lines 26204--26210
[]\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 26204--26210
[]\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 26217--26219
[]\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%
[380]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 26284--26284
 [] \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:[] 
[381] [382] [383]
Underfull \hbox (badness 8189) in paragraph at lines 26479--26485
[]\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[][][]
[384] [385] [386]
Underfull \hbox (badness 1694) in paragraph at lines 26704--26707
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor with suit-able nu-meric ver-sion strings
 (see `De-tails');
[387] [388] [389] [390]
Underfull \hbox (badness 1603) in paragraph at lines 26976--26978
[]\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a
re con-verted by
[391] [392]
Underfull \hbox (badness 1210) in paragraph at lines 27103--27111
[]\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-
[393] [394]
Underfull \hbox (badness 3271) in paragraph at lines 27323--27326
[]\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men
t vari-able
[395] [396]
Underfull \vbox (badness 3780) has occurred while \output is active [397]
[398]
Underfull \hbox (badness 3138) in paragraph at lines 27629--27635
[]\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 27629--27635
\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 27629--27635
\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 1194) in paragraph at lines 27642--27645
[]\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/pcr/m/n/10 create.post[
][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/pcr/m/n/10 bug.report[][][] []\T1/pt
m/m/n/10 and
Underfull \hbox (badness 1389) in paragraph at lines 27668--27670
[]\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na
l HTTP server, see
Underfull \hbox (badness 10000) in paragraph at lines 27695--27701
[]\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by
Underfull \hbox (badness 3826) in paragraph at lines 27710--27715
[]\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/
m/n/10 (and in-di-rectly
[399]
Underfull \hbox (badness 1009) in paragraph at lines 27728--27731
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 27744--27747
[]\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle
d -- see
Underfull \hbox (badness 10000) in paragraph at lines 27752--27758
[]\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 27752--27758
\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 27752--27758
\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 27752--27758
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 27767--27774
[]\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][][]\T1/pcr/m/n/10 up
date.packages[][][][]\T1/ptm/m/n/10 . De-faults to
Underfull \hbox (badness 2384) in paragraph at lines 27767--27774
[]\T1/pcr/m/n/10 c(CRAN="@CRAN@")[]\T1/ptm/m/n/10 , a value that causes some ut
il-i-ties to prompt for a CRAN
Underfull \hbox (badness 2837) in paragraph at lines 27767--27774
\T1/ptm/m/n/10 mir-ror. To avoid this do set the CRAN mir-ror, by some-thing li
ke []\T1/pcr/m/n/10 local({r
Underfull \hbox (badness 10000) in paragraph at lines 27767--27774
\T1/pcr/m/n/10 <- getOption("repos"); r["CRAN"] <- "http://my.local.cran";
[400] [401] [402] [403] [404]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28115--28115
 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec,
 300X faster[] 
Underfull \hbox (badness 10000) in paragraph at lines 28128--28132
[]\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex.
y)] = FUN(X[arrayindex.x],
[405] [406]
Underfull \hbox (badness 1210) in paragraph at lines 28275--28278
[]\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,
[407] [408] [409] [410]
Underfull \hbox (badness 7133) in paragraph at lines 28557--28563
[][][]\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 28579--28579
 []\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 28591--28591
 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha
t you wanted[] 
[411]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 28604--28604
 []\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 more vectorized behaviour, i.e. zero-length recycling :
[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 28608--28608
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0=
TRUE) # -> character(0)[] 
[412] [413]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28791--28791
 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow()  # same as nrow(subset(mt
cars, cyl == 4))[] 
[414]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28806--28806
 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so 
is not evaluated[] 
Underfull \hbox (badness 1360) in paragraph at lines 28861--28865
[]\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 =
[415] [416] [417] [418] [419]
Underfull \hbox (badness 2277) in paragraph at lines 29173--29178
\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
[420] [421]
Underfull \hbox (badness 1533) in paragraph at lines 29289--29293
[]\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/pcr/m/n/10 `\T1/p
cr/m/n/10 name\TS1/pcr/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\T1
/pcr/m/n/10 get[][][](name, envir =
[422]
Underfull \hbox (badness 1796) in paragraph at lines 29357--29360
[]\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
[423] [424] [425]
Underfull \hbox (badness 10000) in paragraph at lines 29561--29564
[]\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
[426] [427] [428] [429] [430] [431] [432] [433] [434] [435]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 30256--30256
 []           \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))[] 
[436] [437] [438] [439] [440]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 30549--30549
 []\T1/pcr/m/n/9 (nn <- "\u0126\u0119\u1114\u022d\u2001\u03e2\u0954\u0f3f\u13d3
\u147b\u203c")[] 
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 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\
U147b\U203c"[] 
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 []\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)[] 
[441]
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[]\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
[442]
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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[] 
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 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind =
 NULL)[] 
[443] [444]
Underfull \hbox (badness 3713) in paragraph at lines 30874--30885
[]\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
[445] [446]
Underfull \hbox (badness 1248) in paragraph at lines 31026--31033
\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
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\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 /
[447]
Underfull \hbox (badness 1533) in paragraph at lines 31144--31147
[]\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
[448] [449] [450]
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 []     \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
[451] [452]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 31451--31451
 []\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")[] 
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 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
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 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character",                      h
ow = "unlist")[] 
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 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
[453] [454] [455] [456] [457]
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 []\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 31783--31783
 []\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 31784--31784
 []\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 [458]
[459]
Underfull \hbox (badness 4048) in paragraph at lines 31879--31884
[]\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:
Underfull \hbox (badness 1824) in paragraph at lines 31879--31884
\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 ,
[460] [461] [462] [463] [464] [465] [466] [467]
Underfull \hbox (badness 2080) in paragraph at lines 32417--32427
[]\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 32451--32451
 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene
d as needed.[] 
[468] [469] [470] [471] [472] [473] [474]
Underfull \hbox (badness 7558) in paragraph at lines 32971--32975
[]\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 32981--32983
[]\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
[475]
Underfull \hbox (badness 10000) in paragraph at lines 32992--32994
[]\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 32995--32999
[]\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 .
[476] [477] [478] [479] [480]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 33366--33366
 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3)         # length 24, 3 complete 
replications[] 
[481]
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[][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] []
[]NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple
x_[][][]
[482] [483] [484]
Underfull \hbox (badness 2302) in paragraph at lines 33663--33668
[]\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 33663--33668
\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 -
[485] [486]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 33796--33796
 []      \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"),[] 
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 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
[487] [488] [489] [490] [491] [492] [493]
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 []           \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) 
&& size <= n/2))[] 
[494] [495] [496] [497] [498] [499] [500]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 34691--34691
 []     \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul =
 FALSE)[] 
[501]
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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
[502] [503]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 34981--34981
 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data
", sep = "\n") 
[504] [505] [506] [507]
Underfull \hbox (badness 4752) in paragraph at lines 35241--35244
[]\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 35245--35251
[]\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
[508] [509] [510] [511] [512] [513] [514] [515] [516] [517]
Underfull \hbox (badness 10000) in paragraph at lines 35915--35926
[]\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
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\T1/ptm/m/n/10 the shell. It may de-pend on the com-piler used: Mi-crosoft's ru
les for the C run-
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\T1/ptm/m/n/10 time are given at [][]$\T1/pcr/m/n/10 https : / / docs . microso
ft . com / en-[]us / cpp / c-[]language /
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\T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][
]\T1/ptm/m/n/10 . It may de-pend on the
[518] [519] [520] [521] [522] [523] [524] [525]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 36455--36455
 []         \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index
.return = FALSE)[] 
[526] [527] [528]
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 []              \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length 
= Inf,[] 
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 []              \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes"
, "keepNA"),[] 
[529]
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[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/
pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T
1/ptm/m/n/10 , see also
Underfull \hbox (badness 5050) in paragraph at lines 36752--36758
[][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \
T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to
[530] [531]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 36863--36863
 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments
 should print:)[] 
[532] [533] [534] [535] [536]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 37206--37206
 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m
/n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 37221--37221
 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is
 being added[] 
[537] [538] [539]
Underfull \hbox (badness 10000) in paragraph at lines 37446--37448
[][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919
799 / functions /
[540] [541] [542]
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 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un
known") 
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 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile =
 FALSE)[] 
[543] [544] [545] [546] [547]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 38005--38005
 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS
E, nowadays often three 
[548]
Underfull \hbox (badness 6110) in paragraph at lines 38101--38111
[]\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
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\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 38101--38111
\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
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\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
[549]
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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 '
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\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,
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\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
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[]\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
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\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
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\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
[550]
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 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba
ckslashes in[] 
[551] [552] [553]
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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
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 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e
xprs = exprs))) 
[554] [555] [556] [557] [558] [559] [560]
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 []\T1/pcr/m/n/9 (fF <- format(.POSIXct(notF))) # was all  NA, now the last is 
still NA (not "NA")[] 
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 []            \T1/pcr/m/n/10 add the string to the left of the match to the ou
tput.[] 
[563] [564] [565]
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 []        \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p
refix)[] 
[566]
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 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll
apse = "\n")[] 
[567] [568] [569] [570] [571] [572] [573]
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 []\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, ....[] 
[574]
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[]\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 39859--39866
[]\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 ).
[575]
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 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau
lt precision 
[576] [577] [578] [579]
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 []    \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw
ise: last"),"\n")[] 
[580] [581] [582]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 40389--40389
 []\T1/pcr/m/n/9 ## whether HOST is set will be shell-dependent e.g. Solaris\TS
1/pcr/m/n/9 ' \T1/pcr/m/n/9 csh does not. 
[583]
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 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, 
macOS, FreeBSD:[] 
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[]\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild
-cards in file paths. For pre-cise de-
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\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.
Underfull \hbox (badness 4792) in paragraph at lines 40476--40481
[]\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 40476--40481
[]\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
[584] [585] [586] [587]
Underfull \hbox (badness 10000) in paragraph at lines 40764--40768
[]\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
[588]
Underfull \hbox (badness 1584) in paragraph at lines 40779--40782
[]\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
[589] [590]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 40917--40917
 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths
), keepNA=TRUE))[] 
[591]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 40998--40998
 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123))  # \TS1/pcr/
m/n/9 `\T1/pcr/m/n/9 A+C\TS1/pcr/m/n/9 ` \T1/pcr/m/n/9 could also be used 
[592] [593]
Underfull \hbox (badness 1082) in paragraph at lines 41143--41146
[]\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
[594]
Underfull \hbox (badness 10000) in paragraph at lines 41170--41172
[][][]\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
[595] [596]
Underfull \hbox (badness 1038) in paragraph at lines 41336--41339
[]\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
[597] [598] [599] [600] [601]
Underfull \hbox (badness 1442) in paragraph at lines 41701--41705
\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 =
[602] [603] [604] [605]
Underfull \hbox (badness 4096) in paragraph at lines 41955--41958
[]\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 ,
[606]
Underfull \hbox (badness 7888) in paragraph at lines 42069--42073
[]\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) >
[607] [608] [609]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 42223--42223
 []            \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1"
, "2"), c("A", "B")))),[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 42225--42225
 []            \T1/pcr/m/n/9 array(list(\TS1/pcr/m/n/9 `\T1/pcr/m/n/9 2\TS1/pcr
/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 42227--42227
 []                 \TS1/pcr/m/n/9 `\T1/pcr/m/n/9 4\TS1/pcr/m/n/9 ` \T1/pcr/m/n
/9 = NULL, \TS1/pcr/m/n/9 `\T1/pcr/m/n/9 5\TS1/pcr/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 42240--42242
[]\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
[610]
Underfull \hbox (badness 10000) in paragraph at lines 42320--42323
[][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [
][]$https : / / developer .
[611] [612]
Underfull \hbox (badness 3872) in paragraph at lines 42438--42441
[]\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call
-backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer .
[613]
Underfull \hbox (badness 5475) in paragraph at lines 42504--42508
[][][]\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 \ [][]$\T1/pcr/m/n/10 https : / /
[614] [615] [616] [617] [618] [619]
Underfull \hbox (badness 1655) in paragraph at lines 42927--42934
\T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[]
\T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1
/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ',
Underfull \hbox (badness 2253) in paragraph at lines 42935--42940
[]\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se
e the ex-am-ples for typ-i-cal cases. It may
Underfull \hbox (badness 1655) in paragraph at lines 42935--42940
\T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , 
some-thing like `[]\T1/pcr/m/n/10 "2020a"[]\T1/ptm/m/n/10 '. (It does on sys-te
ms us-ing
Underfull \hbox (badness 4467) in paragraph at lines 42985--42994
[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-
turns the time-zone names known to the cur-rently se-
Underfull \hbox (badness 3954) in paragraph at lines 42985--42994
\T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t
he file sys-tem varies,
[620]
Underfull \hbox (badness 1082) in paragraph at lines 42995--43007
[]\T1/ptm/m/n/10 is used by de-fault: file `\T1/pcr/m/n/10 VERSION\T1/ptm/m/n/1
0 ' in that di-rec-tory states the ver-sion. That op-tion is
[621]
Underfull \hbox (badness 1337) in paragraph at lines 43080--43088
\T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de
r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 /
usr/local/etc\T1/ptm/m/n/10 ' or
Underfull \hbox (badness 10000) in paragraph at lines 43089--43092
[]\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym
-link tar-get name of
Underfull \hbox (badness 3460) in paragraph at lines 43143--43146
[][][]$\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 43147--43149
[][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h
tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol-
[622]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 43156--43156
 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET",
 "Eire", ..., but[] 
[623] [624] [625] [626]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 43499--43499
 []\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 43501--43501
 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL)  ##--> showing the ncp
 root finding:[] 
[627]
Underfull \vbox (badness 10000) has occurred while \output is active [628]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 43602--43602
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 43604--43604
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
[629] [630] [631] [632]
Underfull \hbox (badness 6542) in paragraph at lines 43878--43880
[]\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
[633]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 43997--43997
 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[
 \t\r\n]") 
[634]
Underfull \hbox (badness 1708) in paragraph at lines 44065--44073
[]\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 44065--44073
\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
[635]
Underfull \hbox (badness 4859) in paragraph at lines 44105--44110
[][][]\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;
[636]
Underfull \hbox (badness 3895) in paragraph at lines 44167--44179
[]\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 44167--44179
\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 ,
[637] [638] [639] [640] [641]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 44490--44490
 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp
ression(1+x))[] 
[642] [643] [644] [645] [646] [647]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 44959--44959
 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local
es and fonts[] 
[648]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 44968--44968
 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little-
endian platforms[] 
Underfull \hbox (badness 2057) in paragraph at lines 45034--45040
[][][]\T1/pcr/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.acc
ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.append[][][][]\T1/ptm/m/n
/10 , [][][]\T1/pcr/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.exists[][][][]
\T1/ptm/m/n/10 ,
[649]
Underfull \hbox (badness 3861) in paragraph at lines 45043--45048
[][][]\T1/pcr/m/n/10 dir.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 di
r.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 normalizePath[][][][]\T1/
ptm/m/n/10 , [][][]\T1/pcr/m/n/10 path.expand[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 pipe[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Sys.glob[][][][]\
T1/ptm/m/n/10 ,
[650]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 45136--45136
 []\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[] 
[651]
Underfull \hbox (badness 1803) in paragraph at lines 45199--45202
[]\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 45203--45209
[]\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
[652] [653] [654]
Underfull \hbox (badness 3668) in paragraph at lines 45432--45434
[]\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di-
ately, even if
[655]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 45538--45538
 []      \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes
sages:\n"),[] 
[656] [657]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 45613--45613
 []\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 45621--45621
 []\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 ...[] 
[658]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 45715--45715
 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w
eek, yr}), ... :[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 45719--45719
 []\T1/pcr/m/n/9 dt2df <- function(dt, dName = deparse(substitute(dt)), strings
AsFactors = FALSE) {[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 45720--45720
 []    \T1/pcr/m/n/9 DF <- as.data.frame(unclass(as.POSIXlt( dt )), stringsAsFa
ctors=stringsAsFactors)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 45727--45727
 []\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 45730--45730
 []\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[] 
[659]
Underfull \hbox (badness 10000) in paragraph at lines 45791--45796
[]\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 45791--45796
[]\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
[660] [661]
Underfull \hbox (badness 2818) in paragraph at lines 45887--45893
[]\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
Overfull \hbox (15.18042pt too wide) in paragraph at lines 45922--45922
 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is
 at least one:[] 
[662] [663] [664] [665] [666] [667] [668]
Underfull \hbox (badness 2846) in paragraph at lines 46381--46385
[]\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
[669]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46421--46421
 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char
acter vector[] 
Underfull \hbox (badness 3209) in paragraph at lines 46442--46446
[]\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
[670]) (./compiler-pkg.tex
Chapter 2.
[671]
Underfull \hbox (badness 2884) in paragraph at lines 106--120
[]\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 106--120
\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
[672] [673] [674]) (./datasets-pkg.tex
Chapter 3.
[675] [676] [677] [678] [679]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 301--301
 []  \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang
e", cex = 1.2,[] 
[680]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 379--379
 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi
ven = FALSE)[] 
Underfull \vbox (badness 1472) has occurred while \output is active [681]
[682] [683] [684]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 617--617
 []           \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t
race = TRUE)[] 
[685]
Underfull \hbox (badness 4779) in paragraph at lines 704--707
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[686] [687]
Underfull \hbox (badness 4779) in paragraph at lines 837--840
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[688] [689] [690]
Underfull \hbox (badness 1097) in paragraph at lines 1037--1041
[]\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.
[691]
Underfull \hbox (badness 4779) in paragraph at lines 1152--1155
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[692] [693] [694] [695] [696]
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 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption
 time (sec)")[] 
[697] [698]
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[]\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 ,
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[]\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
[699] [700] [701]
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[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[702]
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 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil
y = binomial())[] 
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 []  \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum),
 data = infert)[] 
[703] [704]
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 []                                        \T1/pcr/m/n/9 sub(" W.",".Width", dn
i3[[2]])))),[] 
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 []    \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d
ni3[[3]]))))[] 
[705] [706] [707] [708]
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[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[709] [710] [711]
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[712] [713] [714] [715] [716]
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[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[717]
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[718]
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[720]
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[721] [722]
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[723]
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 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 
1.2, pch = ".")[] 
[724] [725] [726] [727] [728] [729] [730]
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 []          \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t
he monthly one:[] 
[731] [732]
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[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[733]
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[734]
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[735]
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 []       \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of
 supplement")[] 
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[]\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 /
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\T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma
n / sitephotos /
[736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747]
[748] [749]) (./grDevices-pkg.tex [750]
Chapter 4.
[751] [752] [753] [754]
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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
[755] [756] [757] [758]
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 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d
.pdf",[] 
[759] [760] [761] [762] [763] [764] [765] [766] [767] [768]
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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
[769] [770] [771]
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 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", 
scale.in = 255))[] 
[772] [773] [774]
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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")
[775] [776] [777] [778] [779]
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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
[780]
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 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res 
= 72,[] 
[781]
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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 ,
[782]
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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
[783] [784] [785]
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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
[786] [787]
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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
[788]
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 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r"
, yaxs = "r") {[] 
[789] [790]
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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)[] 
[791] [792] [793] [794]
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[796] [797] [798] [799]
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 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized
 = FALSE)[] 
[800]
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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))[] 
[801] [802] [803]
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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
[804]
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 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl
e = FALSE)[] 
[805]
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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 = 1:8, ylab =
 "", main=main)[] 
[806]
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 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE,
 fixup = TRUE) 
[807]
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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 ,
[808]
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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,
Underfull \hbox (badness 10000) in paragraph at lines 3886--3890
\T1/pcr/m/n/10 wikipedia . org / w / index . php ? title = HCL _ color _ space 
& oldid = 883465135$[][]\T1/ptm/m/n/10 .
[809]
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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
[811] [812] [813] [814] [815]
Underfull \hbox (badness 5939) in paragraph at lines 4349--4354
[]\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 ,
[816] [817] [818] [819] [820] [821] [822] [823]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 4869--4869
 []     \T1/pcr/m/n/10 compression = c("none", "rle", "lzw", "jpeg", "zip", "lz
w+p", "zip+p"),[] 
[824] [825]
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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
[826]
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 []\T1/pcr/m/n/9 ## Not run: dev.print(png, file = "myplot.png", width = 1024, 
height = 768)[] 
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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 []\T1/pcr/m/n/10 printf []\T1/ptm/m/n/10 for-mat such as
[827]
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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"
[828]
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[]\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East 
Asian lan-guages -- see
[829] [830] [831]
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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
[832] [833]
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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
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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
[834]
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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 /
[835] [836]
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 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r
eg-tests-1c.R[] 
[837]
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 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100
, ...)[] 
[838] [839]
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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
[840] [841] [842] [843] [844]
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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
[845] [846] [847] [848] [849] [850]
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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,[] 
[851] [852] [853] [854]
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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
[855]
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 []\T1/pcr/m/n/9 windows()  # make sure we have the right device type (availabl
e on Windows only)[] 
[856]
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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)[] 
[857]
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[]\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used
. One of
[858]
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[]\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ
K lan-guages and
[859]
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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
[860]
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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
[861]
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 []        \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height
 = 6, xpos = 0,[] 
[862] [863]
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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
 ,
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[]\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt
p : / / www . schmidt-[]web-[]berlin . de /
[864] [865] [866]
Underfull \hbox (badness 1231) in paragraph at lines 7832--7834
[]\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
[867] [868]) (./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 =
[869] [870] [871] [872] [873] [874] [875]
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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
[876] [877]
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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[] 
[878]
Underfull \hbox (badness 10000) in paragraph at lines 694--698
[]\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 694--698
[][][]\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
[879] [880]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 770--770
 []\T1/pcr/m/n/9 ## 1e-01 1e+01 1e+03 1e+05 1e+07 1e+09 1e+11 ; since R 4.2.0: 
1e-2 1e0 1e2 .. 1e10[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 782--782
 []                 \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n
intLog = 5))[] 
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 []        \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = 
NULL, ...)[] 
[881] [882] [883]
Underfull \hbox (badness 10000) in paragraph at lines 966--970
[][][]\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.
Overfull \hbox (133.98029pt too wide) in paragraph at lines 983--983
 []        \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 985--985
 []\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 987--987
 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur
vived, *)", color=TRUE)[] 
[884] [885] [886] [887]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1271--1271
 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. 
outside hinges"):[] 
[888] [889] [890]
Underfull \hbox (badness 2503) in paragraph at lines 1433--1442
\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 1468--1470
[]\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt
m/m/n/10 ),
[891] [892]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1542--1542
 []\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 1543--1543
 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main =    "plot(*, col.axi
s=..,main=..)")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1549--1549
 []\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 1550--1550
 []              \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl
ty = 1, outpch = NA)[] 
[893] [894] [895] [896] [897]
Underfull \hbox (badness 10000) in paragraph at lines 1853--1859
[][][]\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 1873--1873
 []\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 1885--1885
 []\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 1901--1901
 []\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 1910--1910
 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
[898] [899]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 1995--1995
 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col
umns, 
[900] [901]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 2124--2124
 []\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 2129--2129
 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c(
TRUE, FALSE))[] 
[902] [903]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2303--2303
 []\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 2304--2304
 []         \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T
RUE, log = "",[] 
[904]
Underfull \hbox (badness 1430) in paragraph at lines 2335--2337
[]\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
[905]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 2416--2416
 []               \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO
rRd", rev = TRUE),[] 
Underfull \hbox (badness 1009) in paragraph at lines 2428--2435
\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
[906]
Underfull \hbox (badness 7273) in paragraph at lines 2510--2514
[][][]\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
[907] [908] [909] [910]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2758--2758
 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks:  par(lab = c
(mx, my, 7))[] 
[911]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2795--2795
 []     \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = 
NULL,[] 
[912] [913]
Underfull \hbox (badness 1226) in paragraph at lines 2923--2927
\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
[914]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2976--2976
 []\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 2980--2980
 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a 
suggestion only"[] 
[915]
Underfull \hbox (badness 10000) in paragraph at lines 3042--3045
[][][]\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
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3093--3093
 []\T1/pcr/m/n/9 ## The default fuzz in hist.default()  "kills" this, with a "w
rong" message:[] 
[916] [917] [918]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3257--3257
 []\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 3262--3262
 []        \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel)
, n = 1, plot = plot, ...)[] 
[919] [920]
Underfull \hbox (badness 10000) in paragraph at lines 3404--3409
[]\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 3404--3409
[][][]\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 3404--3409
[][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt
m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is
[921] [922] [923]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3590--3590
 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 
0, horiz = TRUE)[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 3609--3609
 []       \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 3613--3613
 []       \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace =
 FALSE,[] 
[924] [925] [926]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3798--3798
 []  \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 3799--3799
 []  \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 3803--3803
 []       \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 3813--3813
 []  \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)",[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3844--3844
 []                      \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj
 = c(0, 0.3))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [927]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3870--3870
 []\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 3872--3872
 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow
(VADeaths)))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3883--3883
 []\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 3898--3898
 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c
ol = "blue")[] 
Underfull \vbox (badness 10000) has occurred while \output is active [928]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3906--3906
 []\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 3908--3908
 []\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 3916--3916
 []   \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 3926--3926
 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized"
, "columns."),[] 
[929]
Underfull \hbox (badness 10000) in paragraph at lines 3988--3992
[][][]\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%
[930]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 4100--4100
 []        \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb
ose"))[] 
[931] [932] [933]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 4254--4254
 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le
ngth.out = 100))[] 
[934]
Underfull \hbox (badness 3930) in paragraph at lines 4333--4335
[]\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
[935] [936] [937] [938] [939]
Underfull \hbox (badness 1286) in paragraph at lines 4644--4647
[]\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 4652--4657
[]\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
[940] [941]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4748--4748
 []\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 4753--4753
 []      \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma
=c(2,2,3,2))[] 
[942]
Underfull \hbox (badness 1264) in paragraph at lines 4944--4957
\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 ,
[943] [944] [945] [946]
Underfull \hbox (badness 10000) in paragraph at lines 5210--5213
[947 </builddir/build/BUILD/R-4.2.2/library/graphics/help/figures/mai.pdf>]
Underfull \hbox (badness 10000) in paragraph at lines 5271--5273
[948 </builddir/build/BUILD/R-4.2.2/library/graphics/help/figures/oma.pdf>]
[949] [950]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5517--5517
 []\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 5518--5518
 []  \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t
eachers = 4,[] 
Underfull \vbox (badness 10000) has occurred while \output is active [951]
[952] [953] [954] [955] [956]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5883--5883
 []\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 5884--5884
 []    \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow
3"), border = FALSE)[] 
[957]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5943 \aliasA{plot}{plot.default}{plot}
                                         [958] [959] [960] [961] [962]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6275--6275
 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth)           # numeric v
ector ~ factor[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6281--6281
 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes")  # ext
remely silly[] 
[963] [964]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 6405--6405
 []               \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co
llapse = "\n")),[] 
[965] [966] [967] [968]
Underfull \hbox (badness 10000) in paragraph at lines 6711--6713
[]\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see
[969] [970]
Underfull \hbox (badness 1028) in paragraph at lines 6805--6807
[]\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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[][] 
[971 </builddir/build/BUILD/R-4.2.2/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,[] 
[972]
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 []    \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes  =  FALSE, xlab = "", ylab =
 "", main = main)[] 
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[974]
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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)))))[] 
[975]
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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
[976] [977] [978] [979]
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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))[] 
[980] [981] [982] [983] [984] [985]
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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):[] 
[986]
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 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0
, add = TRUE),[] 
[987] [988] [989] [990] [991]
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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,[] 
[992] [993] [994]
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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, ...)[] 
[995] [996]
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 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL,
 ...,[] 
[997]
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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
[998]
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 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035
, seg.lwd = .8)[] 
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 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, 
lambda = 2),[] 
[999] [1000]
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 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll
apse = ","),[] 
[1001] [1002]
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 []     \T1/pcr/m/n/9 "Le fran�ais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est fa�ile: 
R�gles, Libert�, Egalit�, Fraternit�...")[] 
[1003]
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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
[1004]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni
ts}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9018 \HeaderA{units}{Graphical Units}{units}
                                               [1005]
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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
[1006] [1007]
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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)[] 
[1008]) (./grid-pkg.tex
Chapter 6.
[1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018]
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[]\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments
 to the
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1025] [1026] [1027]
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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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, height=0.5,[] 
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), name="C"),[] 
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, height=0.5,[] 
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 []                                       \T1/pcr/m/n/9 just=c("left", "bottom"
), name="D")),[] 
[1028] [1029] [1030] [1031]
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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
[1032] [1033] [1034] [1035] [1036] [1037] [1038]
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 []  \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75)
, list(...)))[] 
[1039] [1040] [1041]
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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")[] 
[1042]
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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 ,
[1043]
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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
[1044] [1045] [1046]
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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
[1047] [1048] [1049]
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 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = 
FALSE)[] 
[1050]
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 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs =
 FALSE,[] 
[1051] [1052]
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 []                          \T1/pcr/m/n/9 children=gList(grob(name="child", vp
="vp1::vp2")),[] 
[1053]
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 []           \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp =
 NULL)[] 
[1054] [1055]
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[]\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix;
 see
[1056] [1057] [1058]
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 []  \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1
, "inches"),[] 
[1059] [1060] [1061] [1062] [1063]
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 []                                       \T1/pcr/m/n/9 children=vpList(viewpor
t(name="vp2"))))[] 
[1064] [1065]
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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")))[] 
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[]\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
[1066] [1067]
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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,[] 
[1068] [1069] [1070]
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 []                \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant
i-clockwise")[] 
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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[] 
[1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082]
[1083]
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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
[1084] [1085] [1086] [1087]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1088] [1089]
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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
[1090] [1091] [1092] [1093] [1094] [1095]
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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
[1096] [1097]
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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
[1098] [1099] [1100]
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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
[1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111]
[1112] [1113] [1114] [1115] [1116] [1117]
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 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r
ecurse=TRUE)[] 
[1118]
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 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip()
, device=TRUE) 
[1119] [1120]
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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
[1121]
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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 ,
[1122] [1123] [1124] [1125] [1126]
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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"))))[] 
[1127]) (./methods-pkg.tex [1128]
Chapter 7.
[1129] [1130]
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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
[1131] [1132] [1133]
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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-
[1134] [1135]
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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[] 
[1136]
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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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[1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149]
[1150] [1151] [1152]
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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[] 
[1153] [1154]
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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
[1155] [1156] [1157]
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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 =
[1158] [1159]
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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
[1160] [1161] [1162]
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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
[1163]
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 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin
g(where))[] 
[1164] [1165] [1166]
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 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers
ions visible:[] 
[1167] [1168] [1169] [1170] [1171] [1172] [1173]
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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
[1174] [1175]
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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
[1176]
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[]
[1177] [1178]
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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, ...) {
[1179]
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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
[1180] [1181] [1182] [1183] [1184] [1185]
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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,[] 
[1186]
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 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w
here) 
[1187] [1188] [1189]
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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 ,
[1190] [1191] [1192]
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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
[1193] [1194] [1195] [1196]
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 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate
 inheritance[] 
[1197]
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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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[1199]
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[]\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...)
[1200] [1201]
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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
[1202] [1203] [1204]
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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
[1205] [1206] [1207] [1208] [1209] [1210]
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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
[1211] [1212]
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[]\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
[1213]
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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
[1214] [1215]
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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
[1216]
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[1218] [1219]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.S4}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6981 \aliasA{S4}{S3Part}{S4}
                               [1220]
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 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement 
version of as().[] 
[1221] [1222]
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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")[] 
[1223]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Com
plex}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7237 \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.7239 \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.7240 \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.7242 \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.7243 \aliasA{Summary}{S4groupGeneric}{Summary}
                                                
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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
[1224]
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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 7317--7329
[]\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 ,
[1225] [1226]
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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
[1227]
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 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d
itto w/o "Root"[] 
[1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238]
[1239] [1240]
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 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact
er(), 
[1241]
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 []      \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class
Def =,[] 
[1242] [1243] [1244] [1245]
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 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col
umn matrices[] 
[1246] [1247] [1248]
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 []  \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns),
 "setCount")[] 
[1249] [1250] [1251]
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 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo
rmal arguments[] 
[1252] [1253] [1254] [1255]
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 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre
es of freedom[] 
[1256]
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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][] 
[1257] [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266]
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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
[1267] [1268] [1269]) (./parallel-pkg.tex [1270]
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
[1271]
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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
[1272] [1273]
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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
[1274]
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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.
[1275] [1276]
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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
[1277] [1278] [1279] [1280] [1281]
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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
[1282] [1283]
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 []         \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini
ty.list = NULL)[] 
[1284] [1285] [1286]
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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[] 
[1287]
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[]\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
[1288]
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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
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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)[] 
[1289] [1290]
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 []                 \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif
(N, 1, 28)))[] 
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 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct,  format = 
"%Y-%m-%d")))[] 
[1291]
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[]\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
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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
[1292] [1293]) (./splines-pkg.tex [1294]
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
[1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 496--496
 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height,  women, bSpl
ine = TRUE))[] 
[1303]
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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
[1304] [1305]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 712--712
 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, 
sparse = TRUE)))[] 
[1306] [1307] [1308]) (./stats-pkg.tex
Chapter 10.
[1309]
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[] 
[1310] [1311] [1312] [1313] [1314]
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 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea
rson Chi-square[] 
[1315]
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 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = 
FALSE) 
[1316] [1317] [1318] [1319] [1320] [1321]
Underfull \hbox (badness 1024) in paragraph at lines 887--889
[]\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
[1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1625--1625
 []          \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)[] 
[1333] [1334]
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 []                 \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n
a.rm=na.)$y),[] 
[1335]
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 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$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 :[
] 
[1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]
[1347] [1348] [1349]
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 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F
ALSE) 
[1350] [1351] [1352] [1353]
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 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co
l = "green")[] 
[1354] [1355] [1356]
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[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo
geneity of
[1357]
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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)[] 
[1358] [1359] [1360] [1361]
Package amsmath Warning: Foreign command \atopwithdelims;
(amsmath)                \frac or \genfrac should be used instead
(amsmath)                 on input line 3642.
[1362]
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 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = "
log density",[] 
[1363] [1364] [1365] [1366]
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 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit
df = 0) 
[1367] [1368] [1369] [1370] [1371]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4276--4276
 []\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 4277--4277
 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
[1372] [1373] [1374] [1375]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4518--4518
 []\T1/pcr/m/n/9 chisq.test(x, p = p)            #               maybe doubtful
, but is ok![] 
[1376] [1377]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4693--4693
 []  \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df =
 df, ncp = L)),[] 
[1378] [1379]
Underfull \hbox (badness 3989) in paragraph at lines 4787--4794
[]\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 =
[1380] [1381] [1382] [1383] [1384]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5172--5172
 []\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 5174--5174
 []\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))[] 
[1385] [1386] [1387]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5396--5396
 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works
 with these :[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 5414--5414
 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil
ter")) 
[1388] [1389] [1390] [1391]
Underfull \hbox (badness 1436) in paragraph at lines 5624--5629
[]\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 5624--5629
\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 5624--5629
\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 ,
[1392] [1393] [1394]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5827--5827
 []         \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE,
 ...)[] 
[1395] [1396]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 5994--5994
 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center =
 TRUE, 
[1397] [1398] [1399]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 6179--6179
 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter =
 NULL) 
[1400] [1401]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 6287--6287
 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en
v = parent.frame())[] 
[1402] [1403] [1404] [1405]
Underfull \hbox (badness 5954) in paragraph at lines 6550--6552
[]\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn
, see
[1406]
Underfull \hbox (badness 2503) in paragraph at lines 6632--6635
[]\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 6636--6638
[]\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 6639--6644
\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,
[1407]
Underfull \hbox (badness 7238) in paragraph at lines 6675--6678
[][][]\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 6687--6687
 []\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[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6710--6710
 []\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 6725--6725
 []\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):[] 
[1408]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6740--6740
 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h
oriz = TRUE)[] 
[1409] [1410] [1411]
Underfull \vbox (badness 10000) has occurred while \output is active [1412]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6994--6994
 []                     \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker
n = TRUE))))[] 
[1413] [1414]
Underfull \vbox (badness 10000) has occurred while \output is active [1415]
[1416] [1417] [1418]
Underfull \hbox (badness 10000) in paragraph at lines 7394--7398
[]\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
[1419]
Underfull \hbox (badness 6493) in paragraph at lines 7493--7496
[]\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
[1420] [1421]
Underfull \hbox (badness 10000) in paragraph at lines 7630--7633
[]\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 =
[1422] [1423] [1424] [1425] [1426] [1427]
Underfull \hbox (badness 10000) in paragraph at lines 8042--8047
[]\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 ,
 ...,
[1428] [1429] [1430] [1431] [1432] [1433]
Underfull \hbox (badness 1210) in paragraph at lines 8397--8399
[]\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
[1434] [1435] [1436] [1437] [1438] [1439]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 8860--8860
 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q
uasipoisson())[] 
[1440]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 8905--8905
 []\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 8908--8908
 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit
"), start = c(0,1))[] 
[1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9488--9488
 []           \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 9489--9489
 []                     \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod
erateS", "VeryS")))[] 
[1449] [1450] [1451]
Underfull \hbox (badness 7291) in paragraph at lines 9668--9670
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test 
of homogeneity of
[1452] [1453] [1454] [1455] [1456] [1457] [1458]
Underfull \hbox (badness 6944) in paragraph at lines 10160--10166
[][][]\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
);
[1459] [1460] [1461]
Underfull \hbox (badness 3758) in paragraph at lines 10374--10377
[]\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
[1462] [1463] [1464] [1465]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 10618--10618
 []    \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL
, ...)[] 
Underfull \hbox (badness 4518) in paragraph at lines 10644--10649
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1466]
Underfull \hbox (badness 4132) in paragraph at lines 10683--10687
[]\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth
od
Underfull \hbox (badness 1112) in paragraph at lines 10737--10743
[]\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-
[1467]
Underfull \hbox (badness 10000) in paragraph at lines 10788--10791
[]\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
[1468] [1469] [1470]
Underfull \hbox (badness 2142) in paragraph at lines 11005--11008
[]\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 ^^@
[1471]
Underfull \hbox (badness 1708) in paragraph at lines 11086--11090
[]\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter-
na-tives are:
[1472]
Underfull \hbox (badness 10000) in paragraph at lines 11128--11134
[][][]\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 11166--11171
[]\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 (=
[1473] [1474]
Underfull \hbox (badness 2635) in paragraph at lines 11299--11302
\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
[1475] [1476] [1477]
Underfull \hbox (badness 1694) in paragraph at lines 11482--11485
[]\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these 
de-fault to
[1478]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11580--11580
 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col
SideColors = cc,[] 
[1479]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 11613--11613
 []            \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 11626--11630
[]\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
[1480] [1481] [1482] [1483] [1484]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11948--11948
 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4)
, DEV.FUN = nD)[] 
[1485]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11963 \aliasA{hat}{influence.measures}{hat}
                                             
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12023--12023
 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA
LSE),[] 
[1486]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12035--12035
 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE),
 ...)[] 
Underfull \hbox (badness 1062) in paragraph at lines 12088--12093
[]\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 12105--12107
[]\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
[1487] [1488] [1489] [1490]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12360--12360
 []                 \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = 
TRUE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12361--12361
 []                 \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact
or)),[] 
[1491] [1492] [1493] [1494] [1495] [1496]
Underfull \hbox (badness 10000) in paragraph at lines 12707--12709
[]\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 12730--12732
[]\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
[1497] [1498] [1499] [1500] [1501]
Underfull \hbox (badness 3417) in paragraph at lines 13037--13039
[]\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 13043--13047
[]\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 13043--13047
\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
[1502] [1503] [1504] [1505] [1506] [1507]
Underfull \hbox (badness 1496) in paragraph at lines 13457--13463
[]\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
[1508] [1509] [1510] [1511]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13706--13706
 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c
ol = "gold")[] 
[1512]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13807--13807
 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep
t", "slope"))[] 
[1513]
Underfull \hbox (badness 4518) in paragraph at lines 13855--13860
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1514] [1515] [1516]
Underfull \hbox (badness 10000) in paragraph at lines 14062--14066
[]\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 ,
[1517] [1518] [1519] [1520] [1521]
Underfull \hbox (badness 1163) in paragraph at lines 14402--14410
\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 ,
[1522] [1523]
Underfull \hbox (badness 4518) in paragraph at lines 14522--14527
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1524] [1525] [1526]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 14710--14710
 []\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 14711--14711
 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1527] [1528] [1529] [1530] [1531]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15054--15054
 []\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 15055--15055
 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
[1532]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 15148--15148
 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra
nge(x))) 
[1533] [1534] [1535] [1536] [1537] [1538] [1539]
Underfull \hbox (badness 2726) in paragraph at lines 15557--15560
[]\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 ,
[1540]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15651--15651
 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i
n R <= 3.5.0[] 
[1541] [1542] [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 16278--16278
 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc
gp, data = esoph) 
[1551] [1552]
Underfull \hbox (badness 1490) in paragraph at lines 16425--16430
\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
[1553]
Underfull \hbox (badness 1648) in paragraph at lines 16491--16493
[]\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,
[1554]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 16576--16576
 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum"
, b = contr.poly))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 16577--16577
 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con
tr.helmert"))[] 
[1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17134--17134
 []\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[] 
[1564] [1565] [1566]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17366--17366
 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, 
s, prob = 0.4)),[] 
[1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] [1575] [1576]
Underfull \vbox (badness 10000) has occurred while \output is active [1577]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 18088--18088
 []\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 [1578]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 18106--18106
 []\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 18107--18107
 []\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 18111--18111
 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co
nverging on *some*):[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18112--18112
 []\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 18115--18115
 []        \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl
("^NixOS", osVersion)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18147--18147
 []              \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21
), th = b[1]))[] 
[1579] [1580] [1581]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18323--18323
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi
ty), DNase.2)[] 
[1582]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18370--18370
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18417--18417
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
[1583] [1584] [1585] [1586]
Overfull \hbox (102.78088pt too wide) in paragraph at lines 18623--18623
 []             \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els
e 2), central = FALSE)[] 
[1587] [1588] [1589] [1590] [1591]
Underfull \hbox (badness 1248) in paragraph at lines 18938--18941
[]\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 18951--18955
[]\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 18959--18963
\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
[1592]
Underfull \hbox (badness 2042) in paragraph at lines 19017--19019
[]\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
[1593]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 19123--19123
 []      \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no
t* at boundary[] 
[1594]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19166--19166
 []     \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", 
axes = FALSE)[] 
Overfull \hbox (123.1803pt too wide) in paragraph at lines 19184--19184
 []\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 19187--19187
 []\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 19207--19207
 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max
(interval), 
[1595]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 19210--19210
 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max
(interval),[] 
Underfull \hbox (badness 2564) in paragraph at lines 19245--19256
[]\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 19245--19256
\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
[1596]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19308--19308
 []\T1/pcr/m/n/9 f  <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 
1)), 10), 10)[] 
[1597] [1598] [1599]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19535--19535
 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 
1, lty = 1:6,[] 
[1600] [1601]
Underfull \hbox (badness 1337) in paragraph at lines 19646--19649
[]\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
[1602] [1603] [1604] [1605] [1606]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 19965--19965
 []      \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 
1.5),[] 
[1607] [1608]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 20053--20053
 []       \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 20055--20055
 []              \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else 
points,[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 20057--20057
 []     \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact
ive(),[] 
[1609]
Underfull \hbox (badness 10000) in paragraph at lines 20117--20123
\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 20117--20123
\T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp
Underfull \hbox (badness 10000) in paragraph at lines 20125--20131
[]\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 20136--20139
[]\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 <-
[1610] [1611] [1612] [1613] [1614]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20437--20437
 []                    \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3,
 ...)[] 
Underfull \hbox (badness 1194) in paragraph at lines 20447--20450
[]\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting
 of the con-fi-dence
[1615]
Underfull \hbox (badness 1107) in paragraph at lines 20505--20507
[]\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
[1616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20560--20560
 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange
") # all colors[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 20567--20567
 []\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)[] 
[1617] [1618]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20661--20661
 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma
r..., oma...)")[] 
[1619] [1620]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 20790--20790
 []    \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE)  # no 
cancellation[] 
[1621]
Underfull \hbox (badness 7740) in paragraph at lines 20853--20855
[]\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
Overfull \hbox (6.78088pt too wide) in paragraph at lines 20901--20901
 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = 
FALSE) 
[1622]
Underfull \hbox (badness 10000) in paragraph at lines 20957--20959
[]\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
[1623]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 20994--20994
 [] \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 20999--20999
 []\T1/pcr/m/n/9 ## poly(<matrix>, df) --- used to fail till July 14 (vive la F
rance!), 2017:[] 
[1624] [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634]
[1635] [1636]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 21854--21854
 []          \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e
xactly equal typically[] 
[1637]
Underfull \hbox (badness 6859) in paragraph at lines 21921--21928
[][][]\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 21932--21938
[]\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 ,
[1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648]
[1649]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 22678--22678
 []         \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign
 = TRUE, ...)[] 
[1650] [1651] [1652] [1653] [1654]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 22962--22962
 []             \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x
)) &&[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 22963--22963
 []                          \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr("
, "p-v"),[] 
[1655] [1656] [1657] [1658] [1659]
Underfull \hbox (badness 1337) in paragraph at lines 23289--23295
[]\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
[1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667]
Underfull \hbox (badness 10000) in paragraph at lines 23848--23850
[]\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 23848--23850
\T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co
ntent / iml / 2017 / 05 / 24 /
Underfull \hbox (badness 10000) in paragraph at lines 23855--23856
[]\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or
g / wiki / Quantile # Estimating _
[1668] [1669]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 23966--23966
 []       \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact"
, "compact"),[] 
[1670]
Underfull \hbox (badness 1028) in paragraph at lines 24024--24027
[]\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
[1671] [1672]
Underfull \hbox (badness 10000) in paragraph at lines 24139--24142
[]\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 24194--24196
[]\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 =
[1673]
Underfull \hbox (badness 7099) in paragraph at lines 24258--24260
[]\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 =
[1674]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24293--24293
 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, 
decreasing=TRUE))[] 
[1675]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24369--24369
 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 
10:1, mean)")[] 
[1676] [1677]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 24486--24486
 []\T1/pcr/m/n/10 #         varying = ___,  # list / matrix / vector (use with 
care)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 24487--24487
 []\T1/pcr/m/n/10 #         v.names = ___,  # vector of variable names in long 
format[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 24488--24488
 []\T1/pcr/m/n/10 #         timevar, times, # name / values of constructed time
 variable[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 24489--24489
 []\T1/pcr/m/n/10 #         idvar, ids)     # name / values of constructed id v
ariable[] 
[1678] [1679]
Underfull \hbox (badness 10000) in paragraph at lines 24649--24654
[][][]\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 24649--24654
[][][]\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
[1680]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 24660--24660
 []\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 24661--24661
 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev
ar = "time")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24680--24680
 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide
", v.names = "x")[] 
[1681]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 24784--24784
 []       \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na.
omit", "fail"),[] 
[1682]
Underfull \hbox (badness 1033) in paragraph at lines 24827--24833
\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 24848--24851
[]\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] =
[1683]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24930--24930
 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi
ans Example")[] 
[1684]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 24959--24959
 []\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 24971--24971
 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1
:5, xlab = NA,[] 
[1685] [1686] [1687] [1688] [1689] [1690] [1691]
Underfull \hbox (badness 6268) in paragraph at lines 25429--25434
[][][]\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 ,
[1692] [1693] [1694] [1695]
Underfull \hbox (badness 1867) in paragraph at lines 25638--25640
[]\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 25653--25657
[]\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 25653--25657
\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 25689--25689
 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165  = "Residual standard error"  printed fr
om summary(lm1)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 25696--25696
 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole
rance=1e-15))[] 
[1696] [1697] [1698]
Underfull \hbox (badness 2495) in paragraph at lines 25879--25888
[]\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 [][]$\T1/pcr/m/n/10 https : / / en .
[1699] [1700]
Underfull \hbox (badness 2197) in paragraph at lines 26021--26024
[]\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion,
 []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and
[1701]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 26041--26041
 []       \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends
 = FALSE)[] 
Underfull \hbox (badness 1412) in paragraph at lines 26048--26050
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui
red; de-faults to
[1702]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 26135--26135
 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS
S"), smooth(x)))[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 26160--26160
 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda 
= NULL, cv = FALSE, 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 26163--26163
 []              \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee
p.stuff = FALSE)[] 
[1703] [1704] [1705]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 26392--26392
 []    \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t
ol) ))[] 
Underfull \hbox (badness 2547) in paragraph at lines 26396--26402
[]\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/
10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in
g only
[1706]
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 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars)  &  smoothi
ng splines")[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 26463--26463
 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # =
= unique(cars$speed)[] 
[1707] [1708] [1709]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 26655--26655
 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na.
fail, 
[1710] [1711] [1712] [1713] [1714] [1715] [1716]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 27035--27035
 []          \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC"
, "hyman"),[] 
[1717] [1718]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 27216--27216
 []\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 27222--27222
 []\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 27231--27231
 []\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 27232--27232
 []\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 [1719]
Underfull \hbox (badness 2922) in paragraph at lines 27301--27306
[]\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
[1720]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 27338--27338
 []  \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 27341--27341
 []                    \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 27350--27350
 []         \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 27351--27351
 []  \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 27355--27355
 []  \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi
[1]+phi[2],2), phi[1]),[] 
[1721]
Underfull \hbox (badness 3240) in paragraph at lines 27409--27412
[][][]\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
[1722]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 27430--27430
 []  \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 27433--27433
 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim
 = c(-1, 8),[] 
[1723]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27516--27516
 []  \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 27520--27520
 []  \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 27530--27530
 []  \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 27535--27535
 []       \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5]
 == frac(log(2), e^{phi[2]})}),[] 
[1724]
Underfull \hbox (badness 2922) in paragraph at lines 27571--27577
[]\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 27593--27593
 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat
a = Indo.1),[] 
[1725]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 27609--27609
 []  \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 27623--27623
 []\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 27625--27625
 []        \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 27628--27628
 []\T1/pcr/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d
atN, control = list(scaleOffset=1))[] 
Overfull \hbox (123.1803pt too wide) in paragraph at lines 27630--27630
 []           \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1
e-11, nDcentral=TRUE), trace=TRUE)[] 
[1726] [1727]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 27742--27742
 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK
a)*input)) 
[1728]
Underfull \hbox (badness 2922) in paragraph at lines 27804--27809
[]\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 (69.18036pt too wide) in paragraph at lines 27842--27842
 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm
id", phi[4] == "scal")))[] 
[1729]
Underfull \hbox (badness 2922) in paragraph at lines 27891--27896
[]\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
[1730]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 27922--27922
 []\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 27956--27961
[]\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
[1731]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 27981--27981
 []\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 27985--27985
 []\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 28005--28005
 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] 
== "scal")))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 28015--28015
 []  \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[] 
[1732]
Underfull \hbox (badness 2922) in paragraph at lines 28050--28055
[]\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 28072--28072
 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt),
 digits = 3)[] 
[1733]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 28090--28090
 []       \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS
micmen model")[] 
Underfull \hbox (badness 6493) in paragraph at lines 28142--28147
[]\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
[1734]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28170--28170
 []\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 28173--28173
 []\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 28176--28176
 []\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 28179--28179
 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f
m1)[["Drop"]]), lty = 3)[] 
[1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745]
[1746] [1747] [1748]
Underfull \hbox (badness 3396) in paragraph at lines 29062--29064
[]\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
[1749] [1750]
Underfull \hbox (badness 2237) in paragraph at lines 29239--29241
[]\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
[1751] [1752] [1753]
Underfull \hbox (badness 2591) in paragraph at lines 29403--29405
[]\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
[1754]
Underfull \hbox (badness 2237) in paragraph at lines 29449--29452
[]\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
[1755]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 29522--29522
 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t
race = FALSE) 
[1756]
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[]\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)
[1757] [1758]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 29701--29701
 []\T1/pcr/m/n/9 symnum(ii, cutpoints =  2*(0:4), symbols = c(".", "-", "+", "$
"), show.max = TRUE)[] 
[1759]
Underfull \hbox (badness 1337) in paragraph at lines 29764--29768
[]\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
[1760] [1761] [1762]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 30028--30028
 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, 
main = t.tit,[] 
[1763]
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 []         \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com
mon",[] 
Underfull \hbox (badness 1616) in paragraph at lines 30082--30085
[]\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial
 resid-u-als, when
[1764] [1765]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 30161--30161
 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s
pan.smth = 1/4)[] 
[1766]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 30239--30239
 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = 
TRUE,[] 
[1767]
Underfull \hbox (badness 2205) in paragraph at lines 30328--30333
[]\T1/ptm/m/n/10 If a []\T1/pcr/m/n/10 specials []\T1/ptm/m/n/10 ar-gu-ment was
 given to [][][]\T1/pcr/m/n/10 terms.formula[][][] []\T1/ptm/m/n/10 there is a
[1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 30927--30927
 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE) 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 30928--30928
 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1777] [1778] [1779] [1780] [1781]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 31228--31228
 []        \T1/pcr/m/n/10 extendInt = c("no", "yes", "downX", "upX"), check.con
v = FALSE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 31229--31229
 []        \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace
 = 0)[] 
[1782] [1783]
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 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature
s: --------------[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 31364--31364
 []\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:[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1784]
[1785] [1786]
Underfull \hbox (badness 1337) in paragraph at lines 31581--31585
[]\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
[1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794]
Underfull \hbox (badness 1337) in paragraph at lines 32110--32114
[]\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
[1795] [1796] [1797]
Overfull \hbox (117.7803pt too wide) in paragraph at lines 32317--32317
 []\T1/pcr/m/n/9 wilcox.test( 4:2,      3:1,     paired=TRUE) # Warning:  canno
t compute exact p-value with ties[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 32319--32319
 []\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)[] 
[1798] [1799] [1800]
Overfull \hbox (138.78088pt too wide) in paragraph at lines 32478--32478
 []      \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps
 = getOption("ts.eps"), ...)[] 
[1801]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 32563--32563
 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F
ALSE, 
[1802] [1803]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 32696--32696
 []\T1/pcr/m/n/9 ## The Female:Rejected combination has NA \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 Freq\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 (and NA prints \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 invisibly\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 as "")[] 
[1804]) (./stats4-pkg.tex
Chapter 11.
[1805] [1806] [1807]
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 []    \T1/pcr/m/n/9 -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/exp(lxhalf))
, log = TRUE))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [1808]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 278--278
 []\T1/pcr/m/n/9 ## Boundary case: This works, but fails if limits are set clos
er to 0 and 1[] 
[1809] [1810] [1811] [1812]pdfTeX warning (ext4): destination with the same ide
ntifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.503 ...Package \pkg{stats4}}{show.Rdash.methods}
                                                   [1813] [1814] [1815])
(./tcltk-pkg.tex [1816]
Chapter 12.
[1817] [1818] [1819] [1820]
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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
[1825] [1826] [1827] [1828] [1829] [1830]
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 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0.
0", "end"))))[] 
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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
[1836]) (./tools-pkg.tex
Chapter 13.
[1837]
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 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for
 new methods.[] 
[1838]
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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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 []\T1/pcr/m/n/9 assertCondition(ff(), "error", "warning") # ok (quietly, catch
ing warning)[] 
[1840]
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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
 ,
[1841]
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 []\T1/pcr/m/n/10 buildVignette(file, dir = ".", weave = TRUE, latex = TRUE, ta
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
[1842] [1843]
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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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xz"),[] 
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 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co
mpress == "none")[] 
[1851] [1852] [1853]
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 []                              \T1/pcr/m/n/10 outputs = FALSE, sources = FALS
E, ...)[] 
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 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU
E, ...)[] 
[1854]
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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
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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
[1855]
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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
[1856] [1857]
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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
[1858] [1859]
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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
[1860]
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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
[1861] [1862]
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 []              \T1/pcr/m/n/10 utils::installed.packages(lib.loc, fields = "En
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
 sub-set of
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
Underfull \hbox (badness 1558) in paragraph at lines 1714--1722
\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,
[1863] [1864] [1865]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.GSC}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1926 \aliasA{GSC}{find\_gs\_cmd}{GSC}
                                       pdfTeX warning (ext4): destination with 
the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig
nored
<to be read again> 
                   \relax 
l.1927 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD}
                                                   [1866] [1867] [1868]
[1869]
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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
[1870]
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 []    \T1/pcr/m/n/9 r"(\newcommand{\Rlogo}{\if{html}{\figure{Rlogo.svg}{option
s: width=100 alt="R logo"}})",[] 
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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
[1871]
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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
 \T1/ptm/m/n/10 3.x.y to be up-dated to those cur-rently in
[1872]
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 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str
ong", 
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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
 sub-set of
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
Underfull \hbox (badness 1558) in paragraph at lines 2399--2407
\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,
[1873]
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 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster"
, "codetools")[] 
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 []    \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations
 = TRUE)[] 
[1874] [1875] [1876] [1877]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2752--2752
 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macros", "system.
Rd"),[] 
[1878]
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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
[1879] [1880] [1881]
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 []\T1/pcr/m/n/10 checkDocFiles   (package, dir, lib.loc = NULL, chkInternal = 
FALSE) 
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 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = 
FALSE)[] 
[1882] [1883] [1884]
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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
[1885] [1886] [1887] [1888] [1889]
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 []             \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro
s", "system.Rd"))[] 
[1890]
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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 
,
[1891] [1892] [1893]
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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
[1894] [1895]
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 []                      \T1/pcr/m/n/10 types = c("examples", "tests", "vignett
es"),[] 
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 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter
net"))[] 
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[]\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run
,
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[]\T1/pcr/m/n/10 testInstalledBasic []\T1/ptm/m/n/10 runs the ba-sic tests, if 
in-stalled. This should be run with
[1896] [1897]
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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
[1898] [1899] [1900] [1901]
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 []  \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry
run),[] 
[1902] [1903]
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 []\T1/pcr/m/n/10 update_pkg_po(pkgdir, pkg = NULL, version = NULL, mergeOpts =
 "", copyright, bugs) 
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[]\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/pcr/m/n/10 m
sgmerge []\T1/ptm/m/n/10 in ad-di-tion to
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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
[1904]
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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
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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
[1905] [1906] [1907]
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[]\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
[1908]
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 []               \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F
ALSE,[] 
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 []               \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr
ess = "xz",[] 
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[]\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 ',
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[]\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 ,
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[]\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
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\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 ',
[1909]
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[]\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
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\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
[1910] [1911]
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 []\T1/pcr/m/n/9 xgettext(tmpPkg, asCall=TRUE )[[1]] # default; shows  \TS1/pcr
/m/n/9 ' \T1/pcr/m/n/9 sqrt(as.complex(x)) \TS1/pcr/m/n/9 '[] 
[1912]) (./utils-pkg.tex
Chapter 14.
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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 ',
[1913] [1914] [1915] [1916]
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 []\T1/pcr/m/n/9 find("cor", numeric = TRUE)                     # numbers with
 these names[] 
[1917]
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\T1/ptm/m/n/10 are []\T1/pcr/m/n/10 c("vertical", "horizontal", "cascade", "min
imize",
[1918]
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[]\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
[1919]
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 []\T1/pcr/m/n/9 # This default is useful only in SDI mode:  it will tile any F
irefox window[] 
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 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("",
 "Firefox"))[] 
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 []         \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No
", "Cancel"))),[] 
[1920] [1921] [1922]
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es"), 
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 []\T1/pcr/m/n/10 aspell_package_R_files(dir, ignore = character(), control = l
ist(),[] 
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 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
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 []\T1/pcr/m/n/10 aspell_package_C_files(dir, ignore = character(), control = l
ist(),[] 
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 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
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[]\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 ,
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[]\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-
[1923] [1924] [1925] [1926] [1927]
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 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer =
 NULL, 
[1928]
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[]\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/pcr/m/n/
10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$
\T1/ptm/m/n/10 , in-di-cat-
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\T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f
or-mat-
Underfull \hbox (badness 1092) in paragraph at lines 1115--1123
\T1/ptm/m/n/10 as [][][]\T1/pcr/m/n/10 getOption[][][]("citation.bibtex.max", 1
) []\T1/ptm/m/n/10 which is []\T1/pcr/m/n/10 1 []\T1/ptm/m/n/10 typ-i-cally.
Underfull \hbox (badness 1817) in paragraph at lines 1115--1123
\T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f
ault by
Underfull \hbox (badness 10000) in paragraph at lines 1127--1129
[]\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing
[1929]
Underfull \hbox (badness 10000) in paragraph at lines 1235--1238
[]\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Digital _ Object _
[1930] [1931]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1318--1318
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1932] [1933] [1934] [1935] [1936]
Underfull \hbox (badness 1859) in paragraph at lines 1721--1730
[]\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b
e quite large the com-
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\T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1
/ptm/m/n/10 never re-turns. Do not re-port that
[1937] [1938]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1826--1826
 []                                     \T1/pcr/m/n/9 data = infert, family = b
inomial())))[] 
[1939]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 1861--1861
 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b
efore$timestamp,[] 
[1940]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 2007--2007
 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp"
), md5sum=TRUE)[] 
[1941]
Underfull \hbox (badness 2277) in paragraph at lines 2076--2081
[]\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
[1942]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 2109--2109
 []\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 2111--2111
 []\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 2119--2119
 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in
 Unicode 13.)[] 
[1943] [1944] [1945]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2267--2267
 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1946]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2319--2319
 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1947] [1948]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 2489--2489
 []                 \T1/pcr/m/n/9 warning("Recommended package \TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 mgcv\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is not installed properly")[] 
[1949]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2512--2512
 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after =
 NULL,[] 
[1950]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2632--2632
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1951]
Underfull \hbox (badness 1082) in paragraph at lines 2706--2710
[][][]\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;
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.2711 ... the Clipboard in MS Windows}{clipboard}
                                                   [1952]
Underfull \hbox (badness 1163) in paragraph at lines 2742--2744
[]\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 .
[1953]
Underfull \hbox (badness 10000) in paragraph at lines 2835--2837
[]\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
[1954] [1955] [1956] [1957]
Underfull \hbox (badness 10000) in paragraph at lines 3053--3055
[]\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see
[1958] [1959] [1960] [1961]
Underfull \hbox (badness 1762) in paragraph at lines 3346--3349
[]\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 =
[1962]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3438--3438
 []\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 3439--3439
 []\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 '[] 
[1963]
Underfull \hbox (badness 2452) in paragraph at lines 3515--3518
[]\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
[1964] [1965] [1966] [1967] [1968] [1969]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 3931--3931
 []  \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf
orm$r_arch, "stats.dll"))[] 
[1970]
Underfull \hbox (badness 4779) in paragraph at lines 4010--4015
[]\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10
 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use
[1971]
Underfull \hbox (badness 1072) in paragraph at lines 4073--4077
[]\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by
 the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the
[1972]
Underfull \hbox (badness 7238) in paragraph at lines 4129--4134
[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1
0 via \T1/ptm/m/n/10 the en-vi-ron-
Underfull \hbox (badness 1337) in paragraph at lines 4129--4134
\T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or 
[]\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / 
/ curl . se / libcurl / c /
Underfull \hbox (badness 1184) in paragraph at lines 4144--4160
\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-
[1973]
Underfull \hbox (badness 4660) in paragraph at lines 4261--4264
\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
[1974]
Underfull \hbox (badness 10000) in paragraph at lines 4285--4287
[]\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
[1975] [1976]
Underfull \hbox (badness 1565) in paragraph at lines 4470--4474
[]\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
[1977]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4553--4553
 []        \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F
ALSE,[] 
[1978]
Underfull \hbox (badness 1910) in paragraph at lines 4587--4594
\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 4587--4594
\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 4587--4594
[]\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 4587--4594
\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 4594--4601
[]\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)
[1979] [1980] [1981] [1982]
Underfull \hbox (badness 5939) in paragraph at lines 4840--4842
[]\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
[1983] [1984]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4983--4983
 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o
ne is in the[] 
[1985]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for
mat}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5054 ...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.5054 ...mat Unordered and Ordered Lists}{format}
                                                   [1986] [1987] [1988]
[1989] [1990] [1991] [1992] [1993]
Underfull \hbox (badness 1622) in paragraph at lines 5577--5581
[]\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
[1994] [1995] [1996] [1997] [1998] [1999]
Underfull \hbox (badness 1448) in paragraph at lines 5956--5961
[]\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
[2000] [2001]
Overfull \hbox (96.78088pt too wide) in paragraph at lines 6106--6106
 []\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 6118--6118
 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported 
as tail.matrix()[] 
[2002] [2003]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6251--6251
 []    \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 6252--6252
 []    \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops 
"other" attributes ..[] 
[2004] [2005] [2006]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6462--6462
 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h
elp(dgamma):[] 
[2007]
Underfull \hbox (badness 10000) in paragraph at lines 6546--6548
[]\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
[2008]
Underfull \hbox (badness 1502) in paragraph at lines 6595--6600
[]\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 6595--6600
\T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are 
listed in file
[2009] [2010]
Underfull \hbox (badness 10000) in paragraph at lines 6768--6777
[]\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de
x,
Underfull \hbox (badness 10000) in paragraph at lines 6768--6777
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 R.home("docs")/html/packages.html\T1/ptm/m/n/10 
', which can be re-made by
[2011]
Underfull \hbox (badness 2150) in paragraph at lines 6832--6835
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion 
to search. See
[2012]
Underfull \hbox (badness 5175) in paragraph at lines 6848--6851
[]\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
[2013]
Underfull \hbox (badness 3118) in paragraph at lines 6971--6973
[]\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
[2014] [2015] [2016]
Underfull \hbox (badness 5091) in paragraph at lines 7146--7148
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 7176--7183
[]\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 7176--7183
\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 7176--7183
\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 7191--7201
\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
[2017]
Underfull \hbox (badness 4441) in paragraph at lines 7234--7237
[]\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 7234--7237
[]\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 7242--7245
[]\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
[2018]
Underfull \hbox (badness 2376) in paragraph at lines 7313--7320
[]\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 7313--7320
\T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there
 are source pack-ages
Underfull \hbox (badness 1342) in paragraph at lines 7313--7320
\T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com
-piled is con-trolled by
Underfull \hbox (badness 1087) in paragraph at lines 7321--7324
[]\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
[2019]
Underfull \hbox (badness 1314) in paragraph at lines 7401--7408
[]\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
[2020]
Underfull \hbox (badness 10000) in paragraph at lines 7481--7486
[][][]\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 7504--7504
 []  \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc
lude/udunits2"))[] 
[2021]
Underfull \hbox (badness 5133) in paragraph at lines 7540--7544
[]\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 7554--7557
[]\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
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7601--7601
 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields
 = "License")[] 
[2022] [2023]
Underfull \hbox (badness 4132) in paragraph at lines 7725--7727
[]\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
[2024] [2025] [2026]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7892--7892
 []\T1/pcr/m/n/9 ls.str(mode = "list")   #- what are the structured objects I h
ave defined?[] 
[2027] [2028] [2029]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 8035--8035
 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F
ALSE) 
Underfull \hbox (badness 10000) in paragraph at lines 8075--8077
[]\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
[2030] [2031]
Underfull \hbox (badness 10000) in paragraph at lines 8180--8182
[]\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 8185--8187
[]\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
[2032] [2033] [2034] [2035]
Underfull \hbox (badness 1859) in paragraph at lines 8413--8416
[]\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br
owser (by
Underfull \hbox (badness 1052) in paragraph at lines 8432--8442
\T1/ptm/m/n/10 ac-cord-ing to ver-sion us-ing \T1/pcr/m/n/10 section \T1/ptm/m/
n/10 el-e-ments with names start-ing with a suit-able pre-fix
[2036]
Underfull \hbox (badness 1655) in paragraph at lines 8507--8510
[]\T1/ptm/m/n/10 A data frame in-her-it-ing from class []\T1/pcr/m/n/10 "news_d
b"[]\T1/ptm/m/n/10 , with [][][]\T1/pcr/m/n/10 attributes[][][] "package" []\T1
/ptm/m/n/10 (and
Overfull \hbox (25.98041pt too wide) in paragraph at lines 8518--8518
 []\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 8526--8526
 []\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 8534--8534
 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st
andardize a bit more[] 
[2037] [2038]
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[]\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 ,
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 []            \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica
tion", "Built"),[] 
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%d/%y"),[] 
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ields=date.fields))[] 
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[]\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
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[]\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
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[]\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,
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 []          \T1/pcr/m/n/9 identical(pu, packageDate("stats"))) # as "utils" an
d "stats" are[] 
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 []                                   \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[] 
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[]\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",
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[]\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
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nt"),[] 
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 []       \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", 
">"),[] 
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 []         \T1/pcr/m/n/9 "S original, <http://statwww.epfl.ch/davison/BMA/libr
ary.html>"),[] 
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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
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[]\T1/ptm/m/n/10 Valid com-ple-tions af-ter the []\T1/pcr/m/n/10 $ []\T1/ptm/m/
n/10 ex-trac-tor are de-ter-mined by the generic func-tion
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 []         \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "
no.loss"),[] 
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 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr
anspose = TRUE)[] 
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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[] 
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 "no.loss"),[] 
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skip,[] 
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 []           \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski
pNul = FALSE)[] 
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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
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 []\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"))[] 
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[]\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are
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\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 .
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[]\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
[2075] [2076] [2077] [2078]
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 []        \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c
(1, 0))) 
[2079] [2080] [2081] [2082]
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\T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral
s & oldid = 78252134$[][]\T1/ptm/m/n/10 .
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 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:6))) # + NA with a warni
ng for "IIIIII"[] 
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 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in  
{1,2,..,3899} :[] 
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 []\T1/pcr/m/n/10 4. |     \-base:::tryCatchOne(expr, names, parentenv, handler
s[[1L]])[] 
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 []\T1/pcr/m/n/10 5. |       \-base:::doTryCatch(return(expr), name, parentenv,
 handler)[] 
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 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold
 = 0) 
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[]\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-
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\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
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 []\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 '[] 
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 []            \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news",
 "Rfunctions",[] 
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 []                         \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
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 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes","
Rfunctions"))[] 
[2091]
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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
[2092]
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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 /
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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
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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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 []                 \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
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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 a char-ac-ter string de-scrib-ing the plat-form \T1/phv/m/n/10
 R \T1/ptm/m/n/10 was built un-der. Where
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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/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at 
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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 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf
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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[]\T1/ptm/m/n/10 logical; if []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault),
 [][][]\T1/pcr/m/n/10 deparse[][][](control = <S>) []\T1/ptm/m/n/10 will not ha
ve
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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[] 
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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/
m/n/10 ap-ply only to files pro-duced by
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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$"[]\T1/ptm/m/n/10 ) and
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\T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/
n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on
 some plat-forms),
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\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --
exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n
/10 ' (and sim-i-lar) and on Win-dows
[2122]
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[]\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p
cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able
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[]\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t
o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment 
vari-able
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[][][]$\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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[]\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
[2133]
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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[][][]
Underfull \hbox (badness 1052) in paragraph at lines 15249--15251
[]\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and
 in-stall. See
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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
[2134]
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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 ,
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 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/
csb/ch3a.txt") 
[2135] [2136] [2137]
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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[][][](<basename>,
[2138]
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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:[]
 
[2139]
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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)))[] 
[2140] [2141]
Underfull \hbox (badness 1297) in paragraph at lines 15805--15807
[]\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i
s se-lected, or
[2142]
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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.
[2143] [2144]
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 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep =
 " ", 
[2145]
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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
Underfull \hbox (badness 10000) in paragraph at lines 16069--16071
[]\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 =
[2146] [2147] [2148]) [2149] [2150] (./KernSmooth-pkg.tex
Chapter 15.
[2151]
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 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat
e = TRUE) 
[2152] [2153] [2154] [2155] [2156]
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 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun
 = 0.05, 
[2157] [2158] [2159] [2160]) (./MASS-pkg.tex
Chapter 16.
[2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171]
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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))[] 
[2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182]
[2183] [2184] [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193]
[2194]
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 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", 
"F"),[] 
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 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", 
"F"),[] 
[2195] [2196] [2197] [2198]
Underfull \hbox (badness 6559) in paragraph at lines 2701--2704
[]\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
[2199] [2200] [2201]
Underfull \hbox (badness 10000) in paragraph at lines 2871--2876
[]\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 ,
Underfull \hbox (badness 10000) in paragraph at lines 2871--2876
[]\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 ,
[2202] [2203]
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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
[2204] [2205] [2206]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3234--3234
 []            \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL
SE, ...)[] 
[2207]
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 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist =
 "exponential")[] 
[2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218]
[2219]
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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
[2220] [2221] [2222] [2223] [2224] [2225] [2226]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4658--4658
 []        \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n",
 ...)[] 
[2227] [2228] [2229]
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 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model 
= FALSE, 
[2230] [2231] [2232] [2233] [2234] [2235] [2236] [2237] [2238] [2239] [2240]
[2241] [2242] [2243]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 5930--5930
 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP
ACK = FALSE) 
[2244]
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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") 
[2245] [2246]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.npk}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6151 ...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.6151 ...sical N, P, K Factorial Experiment}{npk}
                                                   [2247] [2248] [2249]
[2250] [2251] [2252]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 6571--6571
 []     \T1/pcr/m/n/9 start = list(fixed=c(L75=c(48.7, -0.03), lsc=0.24)), verb
ose = TRUE)))[] 
[2253]
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 []     \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr
ellis"))[] 
[2254] [2255] [2256] [2257] [2258] [2259]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7098--7098
 []\T1/pcr/m/n/9 nlmod <- nls(y ~  Const + A * exp(B * x), start=list(Const=100
, A=10, B=1))[] 
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 []     \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c
auchit"))[] 
[2260]
Underfull \hbox (badness 3138) in paragraph at lines 7193--7199
[]\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 ) =
[2261]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7263--7263
 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da
ta = housing)[] 
[2262] [2263]
Underfull \hbox (badness 1389) in paragraph at lines 7372--7375
[]\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,
[2264] [2265]
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 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam
p = "exact")[] 
[2266]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 7567--7567
 []        \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC
V"), ...)[] 
[2267] [2268] [2269] [2270] [2271] [2272]
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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
[2273] [2274]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 8124--8124
 []    \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control =
 NULL)[] 
Underfull \hbox (badness 1590) in paragraph at lines 8148--8152
[]\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
[2275] [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] [2284] [2285]
[2286] [2287] [2288] [2289] [2290] [2291] [2292] [2293] [2294]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 9529--9529
 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS
E, ...)[] 
[2295]
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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 ,
Underfull \hbox (badness 1158) in paragraph at lines 9656--9659
[]\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),
[2296]
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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$double
.eps^0.25,[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 9743--9743
 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub
le.eps^0.25)[] 
[2297] [2298] [2299] [2300] [2301] [2302] [2303] [2304] [2305] [2306] [2307]
[2308] [2309]) (./Matrix-pkg.tex [2310]
Chapter 17.
Underfull \hbox (badness 10000) in paragraph at lines 35--38
[]\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
[2311]
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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
[2312]
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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
Underfull \hbox (badness 1147) in paragraph at lines 153--156
\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
[2313]
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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
[2314] [2315]
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 []   \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym
metry property[] 
[2316]
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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
Underfull \hbox (badness 1668) in paragraph at lines 492--497
[][][]\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
Overfull \hbox (4.38043pt too wide) in paragraph at lines 522--522
 []\T1/pcr/m/n/9 s1 <- bandSparse(13, k = -c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 524--524
 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k =  c(0:2, 6), diag = c(diags, diags[2])
, symm=TRUE)[] 
[2317]
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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)],[] 
[2318]
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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:[] 
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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 '[] 
Overfull \hbox (52.98038pt too wide) in paragraph at lines 649--649
 []\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}"}.[] 
[2319]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 662--662
 []        \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)]),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 668--668
 []\T1/pcr/m/n/9 l12 <- replicate(12, matrix(rpois(16, lambda = 6.4), 4,4), sim
plify=FALSE)[] 
[2320]
Underfull \hbox (badness 1874) in paragraph at lines 737--740
[]\T1/ptm/m/n/10 The orig-i-nal LA-PACK source code, in-clud-ing doc-u-men-ta-t
ion; [][]$\T1/pcr/m/n/10 https : / / netlib . org /
[2321] [2322]
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\T1/ptm/m/n/10 sity'' of []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/
10 y[]\T1/ptm/m/n/10 , see e.g., the \T1/phv/m/n/10 R \T1/ptm/m/n/10 code in []
\T1/pcr/m/n/10 selectMethod(cbind2,
Underfull \hbox (badness 10000) in paragraph at lines 903--908
[]\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:
[2323]
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 []\T1/pcr/m/n/10 ##   solve(a, b, system = c("A","LDLt","LD","DLt","L","Lt","D
","P","Pt"), ...)[] 
[2324]
Underfull \hbox (badness 3612) in paragraph at lines 1054--1057
[]\T1/pcr/m/n/10 signature(from = "CHMfactor", to = "pMatrix") []\T1/ptm/m/n/10
 re-turns the per-mu-ta-tion
[2325]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cho
l}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1154 ...- 'Matrix' S4 Generic and Methods}{chol}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.chol.1}) has been already used, duplic
ate ignored
<to be read again> 
                   \relax 
l.1154 ...- 'Matrix' S4 Generic and Methods}{chol}
                                                   [2326] [2327]
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 []\T1/pcr/m/n/9 ## --> see Cholesky() and its examples, for the pivot structur
e & factorization[] 
[2328]
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 []\T1/pcr/m/n/10 Cholesky(A, perm = TRUE, LDL = !super, super = FALSE, Imult =
 0, ...) 
[2329]
Underfull \hbox (badness 2277) in paragraph at lines 1424--1427
[]\T1/ptm/m/n/10 This is a generic func-tion with spe-cial meth-ods for dif-fer
-ent types of ma-tri-ces. Use
[2330]
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 []\T1/pcr/m/n/9 ## hence, the identical() check *should* work, but fails on so
me GOTOblas:[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1512--1512
 []\T1/pcr/m/n/9 dq <- function(ch) paste(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/p
cr/m/n/9 '\T1/pcr/m/n/9 ,ch,\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 , sep="") ## dQuote(<UTF-8>) gives bad plots[] 
Overfull \hbox (74.58035pt too wide) in paragraph at lines 1520--1520
 []\T1/pcr/m/n/9 (opts <- expand.grid(perm = c(TRUE,FALSE), LDL = c(TRUE,FALSE)
, super = c(FALSE,TRUE)))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1529--1529
 []\T1/pcr/m/n/9 str(re <- lapply(rr, expand), max.level=2) ## each has a \TS1/
pcr/m/n/9 '\T1/pcr/m/n/9 P\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and a \TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 L\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 matrix[] 
[2331]
Underfull \hbox (badness 10000) in paragraph at lines 1565--1572
[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("Cholesky", ...) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 4673) in paragraph at lines 1565--1572
[]\T1/pcr/m/n/10 new("BunchKaufman", ...)[]\T1/ptm/m/n/10 , etc, or rather by c
alls of the form [][][]\T1/pcr/m/n/10 chol[][][](pm) []\T1/ptm/m/n/10 or
Underfull \hbox (badness 1783) in paragraph at lines 1600--1604
[]\T1/ptm/m/n/10 Both these fac-tor-iza-tions can \T1/ptm/m/it/10 di-rectly \T1
/ptm/m/n/10 be treated as (tri-an-gu-lar) ma-tri-ces, as they ex-tend
[2332]
Underfull \hbox (badness 1221) in paragraph at lines 1616--1622
\T1/ptm/m/n/10 ply an $\OML/cmm/m/it/10 n \OMS/cmsy/m/n/10 ^^B \OML/cmm/m/it/10
 n$ \T1/ptm/m/n/10 nu-meric [][][]\T1/pcr/m/n/10 matrix[][][][]\T1/ptm/m/n/10 .
 Hence, for com-pat-i-bil-ity, the []\T1/pcr/m/n/10 "Cholesky" []\T1/ptm/m/n/10
 and
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colSums})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1657 ... Row and Column Sums and Means}{colSums}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.colSums.1}) has been already used, dup
licate ignored
<to be read again> 
                   \relax 
l.1657 ... Row and Column Sums and Means}{colSums}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.colMeans}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.1658 \aliasA{colMeans}{colSums}{colMeans}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.rowMeans}) has been already used, duplicate i
gnored
<to be read again> 
                   \relax 
l.1681 \aliasA{rowMeans}{colSums}{rowMeans}
                                           pdfTeX warning (ext4): destination w
ith the same identifier (name{Rfn.rowSums}) has been already used, duplicate ig
nored
<to be read again> 
                   \relax 
l.1694 \aliasA{rowSums}{colSums}{rowSums}
                                          [2333pdfTeX warning (ext4): destinati
on with the same identifier (name{Rfn.rowMeans,diagonalMatrix.Rdash.method}) ha
s been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.1733 ## S4 method for signature 'CsparseMatrix'
                                                 pdfTeX warning (ext4): destina
tion with the same identifier (name{Rfn.rowSums,diagonalMatrix.Rdash.method}) h
as been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.1733 ## S4 method for signature 'CsparseMatrix'
                                                 ]
Underfull \hbox (badness 2922) in paragraph at lines 1750--1754
[]\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 1750--1754
\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 1761--1764
[][][]\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
[2334] [2335]
Underfull \hbox (badness 3547) in paragraph at lines 1915--1918
[]\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
[2336] [2337] [2338] [2339] [2340] [2341]
Underfull \hbox (badness 7379) in paragraph at lines 2445--2447
[]\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
[2342] [2343] [2344]
Underfull \hbox (badness 10000) in paragraph at lines 2696--2699
[]\T1/pcr/m/n/10 signature(from = "dgTMatrix", to = "matrix")[]\T1/ptm/m/n/10 ,
 and typ-i-cally co-er-cion
Underfull \hbox (badness 4846) in paragraph at lines 2721--2725
[]\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 2726--2730
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 2733--2736
[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 dgCMatrix[][][] []\T1/ptm/m/n/10 or
 the su-per-classes [][][]\T1/pcr/m/n/10 dsparseMatrix[][][] []\T1/ptm/m/n/10 a
nd [][][]\T1/pcr/m/n/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 ;
[2345]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2780--2780
 []    \T1/pcr/m/n/10 .trDiagonal(n, x = 1,            uplo = "U", unitri=TRUE,
 kind)[] 
Underfull \hbox (badness 2689) in paragraph at lines 2789--2791
[]\T1/ptm/m/n/10 integer spec-i-fy-ing the di-men-sion of the (square) ma-trix.
 If miss-ing,
Underfull \hbox (badness 10000) in paragraph at lines 2793--2798
[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 .symDiagonal []\T1/ptm/m/n/10 ([]\T1/pcr/
m/n/10 .trDiagonal[]\T1/ptm/m/n/10 ), the re-sult-ing sparse
Underfull \hbox (badness 3482) in paragraph at lines 2793--2798
[][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 (or [][][]\T1/pcr/m
/n/10 triangularMatrix[][][][]\T1/ptm/m/n/10 ) will have slot []\T1/pcr/m/n/10 
uplo
[2346]
Underfull \hbox (badness 1097) in paragraph at lines 2816--2819
[]\T1/pcr/m/n/10 Diagonal() []\T1/ptm/m/n/10 re-turns an ob-ject of class [][][
]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 or [][][]\T1/pcr/m/n/10 ldiMat
rix[][][] []\T1/ptm/m/n/10 (with ``su-per-class''
Underfull \hbox (badness 1142) in paragraph at lines 2829--2834
[][][]\T1/pcr/m/n/10 CsparseMatrix[][][] []\T1/ptm/m/n/10 (the re-sult-ing clas
s de-pend-ing on []\T1/pcr/m/n/10 shape []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 k
ind[]\T1/ptm/m/n/10 ) rep-re-sen-ta-tion of
[2347]
Underfull \hbox (badness 3646) in paragraph at lines 2925--2928
[]\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 2960--2964
[]\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 2969--2975
[]\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 
: the re-sult is from class
[2348pdfTeX warning (ext4): destination with the same identifier (name{Rfn.coer
ce,diagonalMatrix,nMatrix.Rdash.method}) has been already used, duplicate ignor
ed
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.2975 
       ]
Underfull \hbox (badness 10000) in paragraph at lines 2976--2980
[]\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 2986--2990
[][][]\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
[2349] [2350]
Underfull \hbox (badness 10000) in paragraph at lines 3166--3168
[]\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 :
 this group con-tains
[2351] [2352]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 3312--3312
 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe
rent from the random one[] 
[2353]
Underfull \hbox (badness 2469) in paragraph at lines 3422--3425
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 3445--3450
[]\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 3445--3450
[][][]\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 3451--3460
\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 3451--3460
\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",
[2354] [2355]
Underfull \hbox (badness 10000) in paragraph at lines 3599--3603
[]\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 3599--3603
[]\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 ,
[2356]
Underfull \hbox (badness 1571) in paragraph at lines 3649--3652
[]\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 
: Re-turns (and stores) the
[2357] [2358]
Underfull \hbox (badness 10000) in paragraph at lines 3813--3818
[]\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
Underfull \hbox (badness 6961) in paragraph at lines 3813--3818
\T1/ptm/m/n/10 class []\T1/pcr/m/n/10 "dsparseMatrix" []\T1/ptm/m/n/10 or []\T1
/pcr/m/n/10 "RsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "compMatri
x" []\T1/ptm/m/n/10 by class
Underfull \hbox (badness 1400) in paragraph at lines 3825--3828
[]\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10
 : if []\T1/pcr/m/n/10 uplo ==
[2359]
Underfull \hbox (badness 10000) in paragraph at lines 3896--3898
[]\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 3938--3941
[]\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10
 , or []\T1/pcr/m/n/10 x = "dsyMatrix"
[2360]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3983--3983
 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ 
internally :[] 
[2361]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4116--4116
 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim 
= c(5L, 5L),[] 
[2362]
Underfull \hbox (badness 3635) in paragraph at lines 4179--4183
[]\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 4188--4191
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
[2363]
Underfull \hbox (badness 10000) in paragraph at lines 4193--4197
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n
/10 : the
[2364] [2365pdfTeX warning (ext4): destination with the same identifier (name{R
fn.coerce,dtrMatrix,dgeMatrix.Rdash.method}) has been already used, duplicate i
gnored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.4347 \item[\code{diag}:]
                           Object of class \code{"character"}. Must be]
Underfull \hbox (badness 2065) in paragraph at lines 4378--4382
[]\T1/pcr/m/n/10 signature(a = "dtrMatrix", b = "....")[]\T1/ptm/m/n/10 efficie
ntely use a ``for-ward-solve'' or
[2366] [2367] [2368] [2369]
Overfull \hbox (112.38031pt too wide) in paragraph at lines 4635--4635
 []\T1/pcr/m/n/9 str(jgl009 <- ## https://math.nist.gov/MatrixMarket/data/Harwe
ll-Boeing/counterx/counterx.html[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 4642--4642
 [] \T1/pcr/m/n/9 readHB(gzcon(url("https://www.cise.ufl.edu/research/sparse/RB
/Boeing/msc00726.tar.gz"))))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4646--4646
 []\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 4649--4649
 []\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)[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 4659--4659
 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume
nts to sparseMatrix():[] 
[2370] [2371] [2372] [2373]
Underfull \hbox (badness 10000) in paragraph at lines 4937--4942
[]\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 compMatrix[][][][]\T1/ptm/m/n/10 
, and the non-general vir-tual classes: [][][]\T1/pcr/m/n/10 symmetricMatrix[][
][][]\T1/ptm/m/n/10 ,
[2374]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5018--5018
 []\T1/pcr/m/n/9 if(isTRUE(try(require(graph)))) { ## super careful .. for "che
cking reasons" 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5020--5020
 []  \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 5024--5024
 []  \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE,
 dimnames=dns))[] 
[2375]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5031--5031
 []  \T1/pcr/m/n/9 a. <- sparseMatrix(i= 4:1, j=1:4, dimnames=list(n4,n4), give
C=FALSE) # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] 
[2376] [2377]
Underfull \hbox (badness 4120) in paragraph at lines 5170--5173
[]\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 5188--5188
 []\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 5208--5208
 []\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 5214--5214
 [] \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 5215--5215
 [] \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 5219--5219
 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor
der.col = adjustcolor("skyblue", 1/2))[] 
[2378]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5227--5227
 []\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 5230--5230
 []   \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi
ly zoom in and out[] 
[2379]
Underfull \hbox (badness 1817) in paragraph at lines 5326--5335
[]\T1/ptm/m/n/10 While ``row-indexing'' (of more than one row \T1/ptm/m/it/10 o
r \T1/ptm/m/n/10 us-ing []\T1/pcr/m/n/10 drop=FALSE[]\T1/ptm/m/n/10 ) stays wit
hin the
Underfull \hbox (badness 10000) in paragraph at lines 5368--5370
[]\T1/pcr/m/n/10 signature(x = "matrix", y = "indMatrix") []\T1/ptm/m/n/10 and 
other sig-na-tures (use
Underfull \hbox (badness 7081) in paragraph at lines 5370--5373
[]\T1/pcr/m/n/10 signature(from = "integer", to = "indMatrix")[]\T1/ptm/m/n/10 
: This en-ables typ-i-cal
Underfull \hbox (badness 4556) in paragraph at lines 5376--5383
[]\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : T
he list must have two
[2380]
Underfull \hbox (badness 3302) in paragraph at lines 5401--5404
[]\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : 
re-turn the kro-necker
[2381] [2382] [2383] [2384]
Overfull \hbox (138.78088pt too wide) in paragraph at lines 5776--5776
 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, tol1 = 8
 * tol, checkDN = TRUE, ...)[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 5782--5782
 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, checkDN 
= TRUE, ...)[] 
[2385]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5841--5841
 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if
 not "formally"[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5845--5845
 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g
eneric from base[] 
[2386]
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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) 
[2387] [2388]
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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 6043--6043
 []          \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 6050--6050
 []  \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di
mnames(Kmd)))[] 
[2389] [2390]
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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
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[]\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
[2391]
Underfull \hbox (badness 2635) in paragraph at lines 6402--6407
[]\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 .
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\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
[2392]
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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.,
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[]\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 6566--6576
[][][]\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
[2393]
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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
[2394]
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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.,
[2395]
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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.,
[2396]
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\T1/ptm/m/n/10 should be sig-nalled when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is
 sin-gu-lar. When []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar, []\T1/pcr/
m/n/10 lu(x,
[2397]
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[]\T1/pcr/m/n/10 lu() []\T1/ptm/m/n/10 is a generic func-tion with spe-cial met
h-ods for dif-fer-ent types of ma-tri-ces. Use
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7001--7001
 []                                \T1/pcr/m/n/9 # q is a 0-based permutation o
f the columns[] 
[2398] [2399]
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[]\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
,
[2400]
Underfull \hbox (badness 1490) in paragraph at lines 7163--7165
[]\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)
[2401] [2402]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.det}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7358 \aliasA{det}{Matrix-class}{det}
                                       [2403pdfTeX warning (ext4): destination 
with the same identifier (name{Rfn.coerce,Matrix,denseMatrix.Rdash.method}) has
 been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.7439 \item[dim]
                  \code{signature(x = "Matrix")}: extract matrix dimensions]
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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 7469--7471
[]\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This 
re-lies on a cor-rect
[2404]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.7532 ...*\%}{matrix-products}{.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.7629 ...A{crossprod}{matrix-products}{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.7723 ...tcrossprod}{matrix-products}{tcrossprod}
                                                  
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\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
[2405]
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[]\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 7892--7897
[]\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 7892--7897
[]\T1/pcr/m/n/10 showMethods("%*%", class="dtrMatrix")[]\T1/ptm/m/n/10 ): ma-tr
ix mul-ti-pli-ca-tion. Mul-ti-
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\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
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[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-
[2406] [2407] [2408]
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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
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[]\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
[2409]
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[]\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 <-
[2410] [2411]
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 []   \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 8319--8319
 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a
ll in this example[] 
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[]\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 8386--8391
\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 8394--8397
[]\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.,
[2413]
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[]\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N
ote that these co-er-cions
[2414]
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[]\T1/ptm/m/n/10 fast sim-
[2415]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.nor
m}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.8626 \HeaderA{norm}{Matrix Norms}{norm}
                                         pdfTeX warning (ext4): destination wit
h the same identifier (name{Rfn.norm.1}) has been already used, duplicate ignor
ed
<to be read again> 
                   \relax 
l.8626 \HeaderA{norm}{Matrix Norms}{norm}
                                          [2416]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 8719--8719
 []\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 8720--8720
 []\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 8721--8721
 []\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 8867--8877
[]\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 ,
[2417]
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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
[2418]
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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.,
[2419]
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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.,
[2420] [2421]
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr
op =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop
 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro
p =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr
op =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "NULL", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "NULL", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "NULL", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "NULL", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "index", drop
 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "index", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "index", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop
 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr
op =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop 
=
[2422]
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop
 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro
p =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr
op =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "NULL", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "NULL", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "NULL", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "NULL", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "index", drop
 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "index", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "index", drop =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop
 =
[2423]
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[]\T1/pcr/m/n/10 signature(x = "matrix", y = "pMatrix") []\T1/ptm/m/n/10 and ot
her sig-na-tures (use
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[]\T1/pcr/m/n/10 signature(from = "integer", to = "pMatrix")[]\T1/ptm/m/n/10 : 
This is en-ables typ-i-cal
[2424]
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[]\T1/pcr/m/n/10 signature(from = "pMatrix", to = "matrix")[]\T1/ptm/m/n/10 : c
o-er-cion to a tra-di-tional
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[]\T1/pcr/m/n/10 signature(x = "pMatrix", logarithm="logical")[]\T1/ptm/m/n/10 
: Since per-mu-ta-
Underfull \hbox (badness 3229) in paragraph at lines 9354--9358
\T1/ptm/m/n/10 trix; note that []\T1/pcr/m/n/10 solve(P) []\T1/ptm/m/n/10 is id
en-ti-cal to []\T1/pcr/m/n/10 t(P) []\T1/ptm/m/n/10 for per-mu-ta-tion ma-tri-c
es. See
[2425]
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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")),[] 
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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
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\T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro
m
[2426] [2427]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.qr}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9569 \aliasA{qr}{qr-methods}{qr}
                                   [2428]
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 []\T1/pcr/m/n/9 stopifnot(identical(dimnames(X), dnX))# some versions changed 
X\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s dimnames![] 
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 []\T1/pcr/m/n/9 qxrLA <- qr(m(Xr), LAPACK=TRUE) # => qr.fitted(), qr.resid() n
ot supported[] 
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 []\T1/pcr/m/n/9 ##----- rank-deficient ("singular") case ---------------------
---------------[] 
[2429]
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 []\T1/pcr/m/n/9 (X. <- drop0(Q. %*% R.[, qI], tol=tolE))## just = X, incl. cor
rect colnames[] 
Underfull \hbox (badness 2005) in paragraph at lines 9736--9742
[]\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 
qr[][][](x, tol,
[2430]
Underfull \hbox (badness 10000) in paragraph at lines 9753--9756
[]\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
[2431]
Overfull \hbox (85.38034pt too wide) in paragraph at lines 9852--9852
 []\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"[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 9868--9868
 []\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 9874--9874
 []\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 9875--9875
 []\T1/pcr/m/n/9 (st2 <- system.time(r2 <- rankMatrix(L, method = "qr"))) # con
siderably faster![] 
[2432]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rco
nd}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9893 ... the Reciprocal Condition Number}{rcond}
                                                   [2433]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 10011--10011
 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not
 have full rank[] 
[2434] [2435] [2436]
Underfull \hbox (badness 2150) in paragraph at lines 10202--10210
\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
[2437] [2438]
Underfull \hbox (badness 1558) in paragraph at lines 10342--10345
[]\T1/ptm/m/n/10 numeric square Ma-trix (in-her-it-ing from class []\T1/pcr/m/n
/10 "Matrix"[]\T1/ptm/m/n/10 ) or tra-di-tional
[2439]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 10404--10404
 []                           \T1/pcr/m/n/9 z[order(Mod(z), decreasing=TRUE)]})
, tolerance = 1e-13),[] 
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 []\T1/pcr/m/n/9 ## For the faint of heart, we provide Schur() also for traditi
onal matrices:[] 
[2440]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.sol
ve}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10470 \aliasA{solve}{solve-methods}{solve}
                                            
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 []\T1/pcr/m/n/10 ## solve(a, b, ...) # the two-argument version, almost always
 preferred to 
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 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", "
D", "P", "Pt"), ...)[] 
[2441]
Underfull \hbox (badness 1616) in paragraph at lines 10619--10631
[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 solve []\T1/ptm/m/n/10 meth-ods for a
Underfull \hbox (badness 10000) in paragraph at lines 10636--10639
[]\T1/ptm/m/n/10 (for all []\T1/pcr/m/n/10 b[]\T1/ptm/m/n/10 ) work via []\T1/p
cr/m/n/10 as(a,
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[]\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 (
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[]\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 (
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\T1/pcr/m/n/10 sparse=FALSE, tol = .Machine$double.eps ) []\T1/ptm/m/n/10 : Che
cks if []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is sym-met-ric,
[2442]
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[]\T1/ptm/m/n/10 All these meth-ods first try Cholmod's
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[]\T1/ptm/m/n/10 all end up call-ing LA-PACK rou-tines
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[]\T1/ptm/m/n/10 works via []\T1/pcr/m/n/10 as(b,
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[]\T1/ptm/m/n/10 these meth-ods typ-i-cally use
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[]\T1/ptm/m/n/10 all work via []\T1/pcr/m/n/10 as(a,
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[][][]\T1/pcr/m/n/10 solve[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lu[][][
][]\T1/ptm/m/n/10 , and class doc-u-men-ta-tions [][][]\T1/pcr/m/n/10 CHMfactor
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 sparseLU[][][][]\T1/ptm/m/n/10 , 
and
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 []\T1/pcr/m/n/9 image(ia0 <- solve(a)) # checker board, dense [but really, a i
s singular!][] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 10755--10755
 []  \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on
 [FIXME ??] only[] 
[2443]
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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,
Underfull \hbox (badness 10000) in paragraph at lines 10812--10815
[]\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
[2444]
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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 10823--10827
[]\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
Underfull \hbox (badness 1668) in paragraph at lines 10838--10843
[][][]\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
[2445]
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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 10919--10919
 []  \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 10920--10920
 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0,12),[] 
[2446] [2447]
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 []             \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = 
TRUE,[] 
[2448]
Underfull \hbox (badness 1668) in paragraph at lines 11149--11154
[][][]\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
[2449]
Underfull \hbox (badness 10000) in paragraph at lines 11234--11237
[]\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 11256--11256
 []\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 11259--11259
 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar
e consistent[] 
[2450]
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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 11283--11283
 []\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 11309--11309
 []\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)[] 
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Underfull \hbox (badness 6842) in paragraph at lines 11411--11414
[]\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
[2452]
Underfull \hbox (badness 10000) in paragraph at lines 11446--11450
[][][]\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
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr.Q}) ha
s been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11486 \aliasA{qr.Q}{sparseQR-class}{qr.Q}
                                            [2453] [2454]
Underfull \hbox (badness 10000) in paragraph at lines 11616--11618
[]\T1/pcr/m/n/10 signature(a = "sparseQR", b = "ANY")[]\T1/ptm/m/n/10 : For []\
T1/pcr/m/n/10 solve(a,b)[]\T1/ptm/m/n/10 , sim-ply uses
Overfull \hbox (58.38037pt too wide) in paragraph at lines 11644--11644
 [] \T1/pcr/m/n/9 qc  <- qr.coef  (qrm, y); qc. <- qr.coef  (qrm, y.) # 2nd fai
led in Matrix <= 1.1-0[] 
[2455]
Underfull \hbox (badness 5036) in paragraph at lines 11672--11674
[]\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case
 a
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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-
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\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 ,
[2456]
Underfull \hbox (badness 10000) in paragraph at lines 11834--11837
[]\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/
n/10 co-erces sparse
[2457]
Underfull \hbox (badness 10000) in paragraph at lines 11874--11879
[]\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 11889--11891
[][][]\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(*,
[2458] [2459]
Underfull \hbox (badness 2310) in paragraph at lines 12014--12020
[][][]\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,
[2460]
Underfull \hbox (badness 6188) in paragraph at lines 12105--12107
[]\T1/pcr/m/n/10 signature(from = "ddiMatrix", to = "symmetricMatrix")[]\T1/ptm
/m/n/10 : and many
[2461]
Underfull \hbox (badness 2591) in paragraph at lines 12131--12136
\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
Underfull \hbox (badness 2057) in paragraph at lines 12207--12209
[]\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.,
[2462] [2463]
Underfull \hbox (badness 6641) in paragraph at lines 12294--12297
[]\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 12338--12342
[]\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 12338--12342
\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
[2464] [2465]
Underfull \hbox (badness 7649) in paragraph at lines 12445--12447
[]\T1/ptm/m/n/10 a sparse ma-trix stored in triplet form, i.e., in-her-it-ing f
rom class
[2466] [2467]
Underfull \hbox (badness 10000) in paragraph at lines 12563--12565
[]\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , 
though
[2468]
Underfull \hbox (badness 1668) in paragraph at lines 12692--12695
[][][]\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
[2469]
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[]\T1/ptm/m/n/10 any \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject, co-er-ca-ble to a
 sparse ma-trix (i.e., of sub-class of
[2470]
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 []\T1/pcr/m/n/9 ## pointer vectors can be used, and the (i,x) slots are sorted
 if necessary:[] 
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 []\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)[] 
[2471] [2472]
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 []   \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C1, nWC, 1/
x))$modulus))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12941--12941
 []   \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C2, nWC, 1/
x))$modulus))[] 
[2473]
Underfull \hbox (badness 6910) in paragraph at lines 13147--13149
[]\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back
[2474] [2475]
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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()[] 
[2476]) (./boot-pkg.tex
Chapter 18.
[2477] [2478] [2479] [2480] [2481] [2482] [2483]
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"), 
[2484]
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-
[2485] [2486] [2487]
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 ,
[2488]
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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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[2490] [2491]
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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
[2492] [2493] [2494] [2495]
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-
[2496] [2497] [2498] [2499] [2500]
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), 
[2501] [2502] [2503]
Underfull \vbox (badness 10000) has occurred while \output is active [2504]
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),[] 
[2505]
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.
[2506] [2507] [2508]
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
[2509]
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 ,
[2510] [2511]
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
[2512] [2513] [2514] [2515] [2516]
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,[] 
[2517] [2518] [2519]
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 ,
[2520]
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)) 
[2521] [2522] [2523]
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 
[2524] [2525] [2526] [2527] [2528] [2529] [2530]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838
 []             \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q
 = NULL)[] 
[2531] [2532]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977
 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 =
 grav.z0[3])[] 
[2533] [2534] [2535] [2536]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259
 []\T1/pcr/m/n/9 #  To draw the jackknife-after-bootstrap plot for the head siz
e data as in 
[2537] [2538]
Underfull \hbox (badness 10000) in paragraph at lines 4362--4364
[]\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o
f
Underfull \hbox (badness 1430) in paragraph at lines 4371--4375
\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the
r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a
re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to
[2539] [2540] [2541] [2542] [2543] [2544] [2545] [2546] [2547]
Underfull \hbox (badness 3000) in paragraph at lines 4959--4962
[]\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put 
of a call to
[2548] [2549] [2550] [2551]
Underfull \hbox (badness 2293) in paragraph at lines 5238--5241
[]\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the 
boot-strap
Underfull \hbox (badness 1668) in paragraph at lines 5238--5241
\T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl
os-est to
[2552]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317
 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat
a = grav1[, 2])[] 
[2553] [2554] [2555] [2556] [2557] [2558] [2559] [2560]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866
 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c
ity.sp1$spa[1][] 
[2561]
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
[2562]
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
[2563] [2564] [2565] [2566]
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). 
[2567] [2568]
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[] 
[2569] [2570] [2571]
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
[2572] [2573]
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),[] 
[2574] [2575] [2576] [2577] [2578] [2579] [2580] [2581]) (./class-pkg.tex
[2582]
Chapter 19.
[2583] [2584] [2585] [2586] [2587] [2588] [2589] [2590] [2591] [2592] [2593]
[2594] [2595] [2596] [2597] [2598]) (./cluster-pkg.tex
Chapter 20.
[2599] [2600] [2601]
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]))[] 
[2602] [2603]
Underfull \vbox (badness 10000) has occurred while \output is active [2604]
[2605]
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,
 ...)[] 
[2606] [2607]
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)[] 
[2608]
Underfull \hbox (badness 3078) in paragraph at lines 691--694
[]\T1/ptm/m/n/10 Setting this to []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 saves 
mem-ory (and hence time), but dis-ables
[2609] [2610]
Underfull \hbox (badness 2941) in paragraph at lines 791--794
[][][]\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 ,
[2611]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 834--834
 []\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 881--883
[]\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p
le, see
[2612]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 946--946
 []     \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code
=3), ...)[] 
[2613]
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,
[2614] [2615]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1121--1121
 []        \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 1138--1138
 []\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 [2616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1176--1176
 []\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 1208--1212
[]\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
[2617]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1284--1284
 []          \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 1290--1290
 []             \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin
t variability."),[] 
[2618] [2619] [2620]
Underfull \hbox (badness 10000) in paragraph at lines 1477--1480
Underfull \hbox (badness 10000) in paragraph at lines 1494--1498
[][][]\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 1518--1518
 []\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 1528--1528
 []  \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i
dent. only points[] 
[2621]
Underfull \hbox (badness 5741) in paragraph at lines 1568--1571
[]\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
[2622]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1637--1637
 []      \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa
rnType,[] 
[2623]
Underfull \hbox (badness 1552) in paragraph at lines 1686--1688
[]\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 1699--1703
[]\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 1699--1703
\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
[2624]
Underfull \hbox (badness 1540) in paragraph at lines 1775--1783
\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 =
[2625]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1867--1867
 []\T1/pcr/m/n/9 summary(dfl2 <- daisy(flower, type = list(asymm = c(1, 3), ord
ratio = 7)))[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 1886--1886
 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st
and = FALSE, 
[2626] [2627] [2628] [2629] [2630]
Underfull \hbox (badness 10000) in paragraph at lines 2207--2210
Underfull \hbox (badness 3179) in paragraph at lines 2221--2227
[][][]\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.
[2631] [2632]
Underfull \hbox (badness 10000) in paragraph at lines 2379--2382
[][][]\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 ,
[2633]
Underfull \hbox (badness 1292) in paragraph at lines 2447--2450
[]\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
[2634]
Underfull \hbox (badness 6675) in paragraph at lines 2456--2458
[]\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 2479--2482
[][][]\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 ,
[2635] [2636]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 2608--2608
 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES 
= FALSE, ...) 
[2637]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 2655--2655
 []  \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k
 <= k, table(cl.k) >= 2)[] 
[2638]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2760--2760
 []\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 ):[] 
[2639]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 2839--2839
 []    \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5"
, "faster"),[] 
[2640] [2641] [2642]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3068--3068
 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro
und (1, 16):[] 
[2643] [2644]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3171--3171
 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co
l.axis = "red")[] 
[2645] [2646] [2647]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 3367--3367
 []           \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x
$ac, digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3368--3368
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2648]
Underfull \hbox (badness 10000) in paragraph at lines 3435--3438
[]\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m
/n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <-
[2649]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 3485--3485
 []           \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc,
 digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3486--3486
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2650] [2651] [2652]
Underfull \hbox (badness 10000) in paragraph at lines 3671--3674
[]\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[]
[][](*,
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\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
[2653]
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[][][]\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 ,
[2654]
Underfull \hbox (badness 1748) in paragraph at lines 3796--3801
\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 
<-
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[][][]\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 ,
[2655] [2656] [2657]
Underfull \hbox (badness 10000) in paragraph at lines 3993--3996
[][][]\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 4024--4027
[][][]\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 ,
[2658]
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 []      \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right =
 TRUE, ...)[] 
[2659]
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[]\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
[2660] [2661] [2662]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 4281--4281
 []     \T1/pcr/m/n/10 main = NULL, sub = NULL, xlab = expression("Silhouette w
idth "* s[i]),[] 
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 []     \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat
 = TRUE, ...)[] 
[2663] [2664]
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[] 
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 []   \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[] 
[2665] [2666] [2667] [2668] [2669] [2670] [2671]
Underfull \hbox (badness 10000) in paragraph at lines 4823--4829
[]\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 4839--4841
[]\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
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 []\T1/pcr/m/n/9 ## Visualization: Assuming groups are defined as {1:1000}, {10
01:2000}, {2001:3000} 
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 []\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)$id.med[] 
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 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7  clear "outlier"s  or "wrong group" o
bservations:[] 
[2672]
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 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? -
- Robust range:[] 
[2673]) (./codetools-pkg.tex [2674]
Chapter 21.
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 []           \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch
 = FALSE,[] 
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 []           \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = 
!all,[] 
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 []           \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress
Undefined,[] 
[2675]
Underfull \hbox (badness 10000) in paragraph at lines 65--70
[]\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage
Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply
[2676]
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 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e
nterInternal,[] 
[2677] [2678] [2679]) (./foreign-pkg.tex [2680]
Chapter 22.
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[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
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\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\T1/p
cr/m/n/10 https : / / support .
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\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
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\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2681]
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
[2682] [2683]
Underfull \hbox (badness 3601) in paragraph at lines 237--245
[]\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 ,
[2684]
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 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates =
 FALSE, 
[2685] [2686] [2687]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 461--461
 []          \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t
o.data.frame,[] 
[2688]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 462--462
 []          \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen
d", "no"),[] 
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[]\T1/ptm/m/n/10 character: what to do with du-pli-cated value la-bels for dif-
fer-ent lev-
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\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 505--514
\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,
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[]\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with
 du-
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\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
[2689]
Underfull \hbox (badness 10000) in paragraph at lines 550--558
[]\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / 
en-[]us / windows / win32 / intl /
Underfull \hbox (badness 7613) in paragraph at lines 568--574
[]\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute
[2690]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 623--623
 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg
ument settings.[] 
Overfull \hbox (112.38031pt too wide) in paragraph at lines 624--624
 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to 
R factor labels) are uncomplete,[] 
[2691]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 657--657
 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ
ate variables[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 661--661
 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt
h=w), "\n"))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 668--668
 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, 
collapse="")[] 
[2692] [2693]
Underfull \hbox (badness 10000) in paragraph at lines 812--813
Overfull \hbox (4.38043pt too wide) in paragraph at lines 822--822
 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f
oreign")[1])[] 
[2694]
Underfull \hbox (badness 10000) in paragraph at lines 869--873
[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
Underfull \hbox (badness 10000) in paragraph at lines 869--873
\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p
cr/m/n/10 https : / / support .
Underfull \hbox (badness 10000) in paragraph at lines 869--873
\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
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\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2695]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 900--900
 []  \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G
lobalEnv) 
[2696]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 964--964
 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute
(x))) 
[2697] [2698]
Underfull \hbox (badness 10000) in paragraph at lines 1076--1077
[][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase 
/ format / data _ types .
Overfull \hbox (24.78088pt too wide) in paragraph at lines 1112--1112
 []          \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", 
"codes"))[] 
[2699] [2700]
Underfull \hbox (badness 10000) in paragraph at lines 1270--1276
[]\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig
n:::writeForeignStata[]\T1/ptm/m/n/10 ,
[2701]
Underfull \hbox (badness 2088) in paragraph at lines 1296--1299
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid
e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET
[2702]) (./lattice-pkg.tex
Chapter 23.
[2703]
Underfull \hbox (badness 2073) in paragraph at lines 117--121
\T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [
][]$\T1/pcr/m/n/10 http : / / web . archive . org /
Underfull \hbox (badness 10000) in paragraph at lines 117--121
\T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / 
ms / departments / sia /
[2704] [2705]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 286--286
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
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 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.xyplot"),[] 
[2706]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 298--298
 []        \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul
t.dotplot"),[] 
Overfull \hbox (54.78088pt too wide) in paragraph at lines 305--305
 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.barchart"),[] 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 313--313
 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.stripplot"),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 334--334
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 338--338
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.bwplot"),[] 
[2707] [2708] [2709] [2710]
Underfull \hbox (badness 1221) in paragraph at lines 650--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
[2711] [2712] [2713] [2714]
Underfull \hbox (badness 2005) in paragraph at lines 986--998
[]\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 986--998
\T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a 
use-ful lay-out.
[2715]
Underfull \hbox (badness 1661) in paragraph at lines 1099--1105
[]\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
[2716] [2717]
Underfull \hbox (badness 1097) in paragraph at lines 1225--1227
[]\T1/ptm/m/n/10 Logical flag, whether leg-end should have a
Underfull \hbox (badness 1917) in paragraph at lines 1239--1240
[]\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to
[2718] [2719] [2720]
Underfull \hbox (badness 1540) in paragraph at lines 1479--1485
[]\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 ,
[2721]
Underfull \hbox (badness 10000) in paragraph at lines 1566--1583
[][][]\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 ,
[2722]
Underfull \vbox (badness 10000) has occurred while \output is active [2723]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 1671--1671
 []                  \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar
dSprays$rowpos))),[] 
Underfull \hbox (badness 2012) in paragraph at lines 1725--1727
[]\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
[2724]
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[]\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 1772--1775
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 1825--1827
[]\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix
 An-drews
[2725] [2726] [2727] [2728]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2071--2071
 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl
ot"),[] 
[2729]
Underfull \hbox (badness 10000) in paragraph at lines 2141--2144
[]\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 2141--2144
[]\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs
t checked. If
[2730] [2731] [2732]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 2345--2345
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 2349--2349
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.qqmath"),[] 
[2733] [2734] [2735] [2736] [2737]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 2689--2689
 []          \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev
elplot.raster")[] 
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 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl
ot"),[] 
[2738] [2739]
Underfull \hbox (badness 2913) in paragraph at lines 2791--2796
[]\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 2791--2796
[]\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
[2740]
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[]\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 2925--2927
[]\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] 
[]\T1/ptm/m/n/10 when
Underfull \hbox (badness 1609) in paragraph at lines 2977--2983
[]\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
[2741]
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[]\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
[2742]
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 []      \T1/pcr/m/n/10 xlim = if (is.factor(x)) levels(x) else range(x, finite
 = TRUE),[] 
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 []      \T1/pcr/m/n/10 ylim = if (is.factor(y)) levels(y) else range(y, finite
 = TRUE),[] 
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 []      \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite
 = TRUE),[] 
[2743]
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 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
cloud"),[] 
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 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.wireframe"),[] 
[2744]
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[]\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 3187--3194
[]\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
[2745] [2746] [2747]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.parallel}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.3475 \aliasA{parallel}{B\_08\_splom}{parallel}
                                                 [2748]
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 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
splom"),[] 
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 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.parallel"),[] 
[2749] [2750] [2751] [2752] [2753]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3876--3876
 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt(
var(x))) 
[2754] [2755]
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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
[2756]
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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
[2757]
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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
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[]\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
[2758]
Underfull \hbox (badness 5161) in paragraph at lines 4218--4222
[]\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 4218--4222
\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
[2759] [2760]
Underfull \hbox (badness 1067) in paragraph at lines 4336--4346
[]\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 4336--4346
[]\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 4336--4346
[]\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
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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
[2761] [2762] [2763] [2764] [2765]
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 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab
 = "Height")[] 
[2766] [2767]
Underfull \vbox (badness 1092) has occurred while \output is active [2768]
Underfull \hbox (badness 10000) in paragraph at lines 4955--4958
[]\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 .
[2769] [2770]
Underfull \hbox (badness 1442) in paragraph at lines 5087--5090
[]\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
[2771] [2772] [2773] [2774] [2775]
Underfull \hbox (badness 3646) in paragraph at lines 5426--5429
[][][]\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],[] 
[2776]
Underfull \hbox (badness 10000) in paragraph at lines 5545--5548
[]\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 5545--5548
[]\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
[2777]
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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
[2778] [2779]
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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"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 5751--5751
 []                 \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi
ch.given",[] 
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 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 5753--5753
 []                 \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi
ch.panel",[] 
[2780]
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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
[2781]
Underfull \hbox (badness 2538) in paragraph at lines 5907--5911
\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 5918--5925
[]\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 5918--5925
[]\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
[2782] [2783]
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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 ,
[2784]
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[2786]
Underfull \hbox (badness 4242) in paragraph at lines 6218--6223
[]\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li
s pa-ram-e-
[2787] [2788]
Underfull \hbox (badness 3601) in paragraph at lines 6334--6339
[]\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 6334--6339
\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
[2789]
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 []             \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co
lors")$palette,[] 
[2790] [2791]
Underfull \hbox (badness 1888) in paragraph at lines 6553--6560
[]\T1/pcr/m/n/10 at []\T1/ptm/m/n/10 can be a nu-meric vec-tor, []\T1/pcr/m/n/1
0 col.regions []\T1/ptm/m/n/10 a vec-tor of col-ors, and
[2792]
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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/pcr/m/n/10 shade.colors.palette []\T1/ptm/m/n/10 func-tion should re-turn
 a valid color. The
[2793] [2794] [2795] [2796] [2797]
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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-
Underfull \hbox (badness 1715) in paragraph at lines 7016--7023
\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
[2798] [2799]
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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
[2800] [2801]
Underfull \hbox (badness 10000) in paragraph at lines 7221--7224
\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
[2802] [2803]
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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
[2804]
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 []                  \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta
ils.n = 50))[] 
[2805] [2806]
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[]\T1/ptm/m/n/10 ig-nores these. For types "r" and "smooth", these are passed o
n to
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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
[2807]
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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),[] 
[2808]
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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, ..., ident
ifier, name.type)[] 
[2809] [2810] [2811]
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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")[] 
Underfull \hbox (badness 1436) in paragraph at lines 7973--7979
[]\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
[2812] [2813] [2814] [2815] [2816] [2817] [2818] [2819]
Underfull \hbox (badness 10000) in paragraph at lines 8531--8534
[]\T1/ptm/m/n/10 Extra ar-gu-ments. Passed down to []\T1/pcr/m/n/10 panel.super
pose
Underfull \hbox (badness 10000) in paragraph at lines 8531--8534
[]\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
[2820] [2821]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 8706--8706
 []\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, ...)[] 
[2822]
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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
[2823]
Underfull \hbox (badness 1515) in paragraph at lines 8814--8818
[]\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti
es. If used with
[2824] [2825]
Underfull \hbox (badness 6316) in paragraph at lines 8920--8925
[]\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr
ibed in
[2826]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 9030--9030
 []                \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b
ottom$labels$labels)[] 
[2827] [2828]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 9169--9169
 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su
nspot.year)),[] 
[2829]
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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,
[2830] [2831] [2832] [2833] [2834] [2835] [2836]
Underfull \hbox (badness 7238) in paragraph at lines 9692--9696
[]\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 ,
Underfull \hbox (badness 10000) in paragraph at lines 9692--9696
[]\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 ,
[2837] [2838] [2839]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.melanoma}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9923 \aliasA{melanoma}{H\_melanoma}{melanoma}
                                                [2840] [2841] [2842]
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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
Overfull \hbox (9.78043pt too wide) in paragraph at lines 10158--10158
 []        \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list(
columns = 2),[] 
[2843] [2844]) (./mgcv-pkg.tex
Chapter 24.
[2845] [2846]
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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,[] 
[2847]
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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.
[2848] [2849] [2850] [2851]
Underfull \hbox (badness 10000) in paragraph at lines 379--386
[][][]\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 ,
[2852]
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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)+[] 
[2853] [2854] [2855]
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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
[2856] [2857]
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
[2858] [2859]
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
[2860]
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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).
[2861]
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[2863] [2864] [2865] [2866] [2867] [2868] [2869]
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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$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor
e residuals",[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1367--1367
 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor
+rx+obstruct[] 
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 []\T1/pcr/m/n/9 if (i==1) plot(bs$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$h[ind])
,lwd=2,col=i)[] 
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 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights=
d,data=surv)[] 
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[2872]
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 []  \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid),
 initial = 0,[] 
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 []    \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][
nrow(um)] <- 1[] 
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 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter
polate to te[] 
[2874] [2875] [2876] [2877] [2878] [2879]
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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)[] 
[2880] [2881] [2882] [2883]
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 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str
ict=FALSE) 
[2884] [2885] [2886] [2887] [2888] [2889] [2890]
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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
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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.
[2891] [2892] [2893]
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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
[2894] [2895]
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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 ,
Underfull \hbox (badness 10000) in paragraph at lines 2923--2929
[][][]\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
 ,
Underfull \hbox (badness 10000) in paragraph at lines 2923--2929
[][][]\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 ,
[2896]
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[2900] [2901]
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 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1
e-07, maxit = 200, 
[2902] [2903] [2904] [2905] [2906] [2907]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 3581--3581
 []         \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)),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3585--3585
 []         \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU
LL,...)[] 
[2908] [2909] [2910] [2911] [2912] [2913] [2914] [2915]
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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
[2916] [2917]
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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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[2919] [2920]
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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
[2921] [2922] [2923] [2924] [2925] [2926] [2927]
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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)+[] 
[2928] [2929] [2930]
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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, 
[2931] [2932]
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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
[2933]
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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
[2934] [2935]
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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 .
[2936]
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[2938] [2939] [2940]
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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
[2941] [2942] [2943] [2944] [2945] [2946] [2947]
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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
[2948] [2949]
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 []  \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d
ata. A simple plotting[] 
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 []      \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j]
,lty=lty[j])[] 
[2950]
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 []  \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo
r comparison[] 
[2951] [2952]
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 []       \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r
norm(100)*.4[] 
[2953] [2954] [2955] [2956] [2957]
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 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n
a.action, 
[2958]
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 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona
lize=FALSE)[] 
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[2959] [2960] [2961]
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[2963] [2964]
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 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999,
all.derivs=FALSE) 
[2965] [2966] [2967] [2968]
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[2971] [2972]
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 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want
 to rule the world.",[] 
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 []      \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y),
nthreads=1)[] 
[2973] [2974] [2975] [2976] [2977] [2978] [2979] [2980] [2981]
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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
[2982] [2983]
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 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt
ion with bam...[] 
[2984] [2985]
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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)[] 
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[2987] [2988] [2989] [2990] [2991] [2992] [2993] [2994] [2995] [2996] [2997]
[2998] [2999] [3000] [3001] [3002] [3003]
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[3005]
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[]\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 ,
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[]\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 9310--9313
[]\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 .
[3006]
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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 ,
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[]\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
[3007] [3008] [3009]
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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 n=100,n2=40,n3=3,pers=FALSE,theta=30,phi=30,jit=FALS
E,xlab=NULL,[] 
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 []         \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi
ds=FALSE,[] 
[3010] [3011] [3012]
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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
[3013] [3014] [3015] [3016]
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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-
[3017] [3018] [3019]
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 []        \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL
L,...)[] 
[3020] [3021]
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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))[] 
[3022]
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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[] 
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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
Underfull \hbox (badness 2689) in paragraph at lines 10449--10451
\T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are 
as for
Underfull \hbox (badness 1975) in paragraph at lines 10455--10460
[]\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
[3025]
Underfull \hbox (badness 1205) in paragraph at lines 10539--10541
[]\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a
tes at which
Underfull \hbox (badness 2689) in paragraph at lines 10539--10541
\T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are 
as for
[3026]
Underfull \hbox (badness 10000) in paragraph at lines 10608--10611
[]\T1/ptm/m/n/10 The smooth ob-ject will be largely what is re-turned from
Underfull \hbox (badness 2057) in paragraph at lines 10608--10611
[][][]\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,
[3027] [3028] [3029]
Underfull \hbox (badness 1253) in paragraph at lines 10738--10740
[]\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,
[3030] [3031] [3032] [3033] [3034]
Underfull \hbox (badness 1946) in paragraph at lines 10991--10998
[]\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 10991--10998
\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 10991--10998
\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 10999--11002
[]\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 10999--11002
\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.
[3035]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 11065--11065
 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat
,method="ML")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 11075--11075
 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv
olving them)[] 
[3036]
Underfull \hbox (badness 10000) in paragraph at lines 11106--11109
[]\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 ,
[3037] [3038] [3039] [3040] [3041]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 11408--11408
 []\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) 
[3042] [3043] [3044] [3045] [3046] [3047]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 11782--11782
 []  \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 11796--11796
 []\T1/pcr/m/n/9 b <- gam(list(accel~s(times, k=20, bs = "ad"), ~s(times, k = 1
0), ~1, ~1),[] 
Underfull \vbox (badness 10000) has occurred while \output is active [3048]
[3049]
Underfull \hbox (badness 3861) in paragraph at lines 11898--11901
[]\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 11907--11907
 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, 
cov = TRUE,[] 
[3050]
Underfull \hbox (badness 10000) in paragraph at lines 11924--11928
[]\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 11964--11968
[]\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-
[3051] [3052] [3053]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12108--12108
 [] \T1/pcr/m/n/9 range(er$values-um$values[ind]);range(abs(er$vectors)-abs(um$
vectors[,ind]))[] 
Underfull \hbox (badness 1975) in paragraph at lines 12119--12124
[]\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
[3054]
Underfull \hbox (badness 1803) in paragraph at lines 12196--12200
\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 12208--12220
[]\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
[3055]
Underfull \hbox (badness 2401) in paragraph at lines 12225--12229
[]\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 12225--12229
\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 ,
[3056] [3057] [3058]
Underfull \hbox (badness 6876) in paragraph at lines 12420--12426
[][][]\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
[3059]
Underfull \hbox (badness 10000) in paragraph at lines 12461--12462
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3060] [3061]
Underfull \hbox (badness 10000) in paragraph at lines 12579--12580
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3062]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12633--12633
 []  \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 12645--12645
 []  \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5,
1.5) (black)[] 
[3063]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12657--12657
 []  \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 12662--12662
 []  \T1/pcr/m/n/9 ## penalty defined on whole real line gives constant width i
ntervals away[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12668--12668
 []  \T1/pcr/m/n/9 ## penalty defined only over the data interval (0,1) gives w
ild and wide[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12669--12669
 []  \T1/pcr/m/n/9 ## extrapolation since penalty has been \TS1/pcr/m/n/9 `\T1/
pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] 
[3064]
Underfull \hbox (badness 10000) in paragraph at lines 12738--12740
[]\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 12738--12740
\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
[3065] [3066]
Underfull \hbox (badness 10000) in paragraph at lines 12868--12869
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3067] [3068]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12949--12949
 []\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 12950--12950
 []\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[] 
[3069] [3070]
Underfull \hbox (badness 10000) in paragraph at lines 13103--13104
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3071] [3072] [3073] [3074] [3075]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13353--13353
 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m
ethod="REML")[] 
[3076]
Underfull \hbox (badness 10000) in paragraph at lines 13414--13416
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3077] [3078]
Underfull \hbox (badness 10000) in paragraph at lines 13573--13576
[]\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 13573--13576
\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 13573--13576
[]\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"
[3079] [3080]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13659--13659
 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with
 2 variances[] 
[3081]
Underfull \hbox (badness 10000) in paragraph at lines 13704--13710
[]\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 13704--13710
[]\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-
[3082] [3083] [3084]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 13918--13918
 []\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 [3086]
Underfull \hbox (badness 10000) in paragraph at lines 14021--14029
[][][]\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 14047--14048
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3087] [3088] [3089]
Underfull \hbox (badness 7613) in paragraph at lines 14192--14195
[]\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
[3090]
Underfull \hbox (badness 1546) in paragraph at lines 14213--14214
[]\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 14259--14259
 []\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")[] 
[3091] [3092] [3093]
Underfull \hbox (badness 3396) in paragraph at lines 14405--14408
[][][]\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 14450--14452
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3094] [3095] [3096] [3097] [3098] [3099]
Underfull \hbox (badness 10000) in paragraph at lines 14741--14743
[]\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see
Underfull \hbox (badness 10000) in paragraph at lines 14771--14775
[][][]\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[][][] [][]tprs[][][][]\T1/ptm/m/n/10 ,[
][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
cubic.regression.spline[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 p.spline[][
][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14771--14775
[][][]\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 14771--14775
[][][]\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 ,
[3100] [3101] [3102] [3103] [3104]
Underfull \hbox (badness 2158) in paragraph at lines 15061--15061
[]\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma-
trix from
[3105] [3106]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 15140--15140
 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0,
centre=FALSE)[] 
[3107] [3108]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 15274--15274
 []                  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars
"),...)[] 
[3109] [3110]
Underfull \hbox (badness 4846) in paragraph at lines 15405--15408
[]\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
[3111] [3112] [3113] [3114] [3115] [3116] [3117] [3118] [3119] [3120] [3121]
[3122] [3123] [3124] [3125] [3126] [3127] [3128] [3129] [3130]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 16623--16623
 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL,
unconditional=FALSE, ...)[] 
[3131]
Underfull \hbox (badness 1715) in paragraph at lines 16645--16646
[]\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
[3132] [3133] [3134]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 16835--16835
 []\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 16837--16837
 []\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 16839--16839
 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt=
NULL)[] 
[3135]
Underfull \hbox (badness 10000) in paragraph at lines 16859--16860
[]\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows
Underfull \hbox (badness 1668) in paragraph at lines 16859--16860
[]\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
[3136]
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[3138]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17047--17047
 []\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 17048--17048
 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun
ded in regions[] 
[3139]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17060--17060
 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val
ues, to check we[] 
[3140] [3141] [3142]) (./nlme-pkg.tex
Chapter 25.
[3143]
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
[3144]
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
[3145] [3146] [3147] [3148] [3149]
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,[] 
[3150] [3151]
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 ---------------------------
---------------[] 
[3152] [3153] [3154] [3155] [3156] [3157] [3158] [3159]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1085--1085
 []                  \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil
lary fissure"),[] 
[3160]
Underfull \hbox (badness 5446) in paragraph at lines 1147--1149
[]\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
[3161] [3162] [3163] [3164] [3165] [3166] [3167]
Underfull \hbox (badness 10000) in paragraph at lines 1630--1633
[][][]\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 
,
[3168]
Underfull \hbox (badness 3780) in paragraph at lines 1647--1649
[]\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
[3169] [3170] [3171] [3172] [3173]
Underfull \hbox (badness 2042) in paragraph at lines 1996--2002
\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 ,
[3174]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2058--2058
 []\T1/pcr/m/n/9 collapse(Pixel, collapse = 1)  # same as collapse(Pixel, colla
pse = "Dog")[] 
[3175]
Underfull \hbox (badness 1132) in paragraph at lines 2147--2149
[]\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac
ted us-ing the
[3176] [3177]
Underfull \hbox (badness 4168) in paragraph at lines 2258--2264
[][][]\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 ,
[3178]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2283--2283
 []  \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3179] [3180] [3181] [3182] [3183] [3184] [3185] [3186]
Underfull \hbox (badness 10000) in paragraph at lines 2849--2853
[][][]\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 ,
[3187] [3188] [3189] [3190] [3191] [3192pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d
uplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.3193 ...trix(cs1, covariate = 1:4, corr = FALSE)
                                                  ] [3193] [3194] [3195]
[3196] [3197] [3198]
Underfull \hbox (badness 6493) in paragraph at lines 3585--3593
[][][]\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 ,
[3199] [3200] [3201] [3202] [3203] [3204] [3205] [3206] [3207] [3208] [3209]
[3210] [3211] [3212] [3213] [3214] [3215] [3216] [3217] [3218] [3219] [3220]
[3221] [3222]
Underfull \hbox (badness 10000) in paragraph at lines 5165--5169
[][][]\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 ,
[3223] [3224] [3225] [3226] [3227] [3228] [3229]
Underfull \hbox (badness 10000) in paragraph at lines 5597--5600
[][][]\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 ,
[3230] [3231] [3232] [3233] [3234] [3235] [3236] [3237] [3238]
Underfull \hbox (badness 2799) in paragraph at lines 6103--6109
\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
[3239]
Underfull \hbox (badness 7133) in paragraph at lines 6164--6168
[]\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 ,
[3240]
Underfull \hbox (badness 2057) in paragraph at lines 6253--6264
[][][]\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 ,
[3241]
Underfull \hbox (badness 10000) in paragraph at lines 6317--6319
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3242] [3243] [3244] [3245]
Underfull \hbox (badness 7133) in paragraph at lines 6566--6570
[]\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 ,
[3246]
Underfull \hbox (badness 10000) in paragraph at lines 6665--6671
[][][]\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 6692--6692
 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min
Scale = 0.001, 
[3247]
Underfull \hbox (badness 10000) in paragraph at lines 6730--6732
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3248] [3249] [3250] [3251]
Underfull \hbox (badness 10000) in paragraph at lines 7002--7009
[][][]\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 ,
[3252]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7020--7020
 []                \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla
ry fissure" ),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7025--7025
 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new )   # fixed and groups formulae extracted
 from object[] 
Underfull \hbox (badness 2875) in paragraph at lines 7047--7049
[]\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
[3253] [3254] [3255]
Underfull \hbox (badness 10000) in paragraph at lines 7262--7267
[][][]\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 ,
[3256] [3257] [3258]
Underfull \hbox (badness 1997) in paragraph at lines 7414--7422
[]\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 7414--7422
\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 7437--7440
[][][]\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 ,
[3259] [3260] [3261]
Underfull \hbox (badness 3354) in paragraph at lines 7653--7655
[]\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
[3262] [3263] [3264] [3265] [3266] [3267] [3268] [3269]
Underfull \hbox (badness 10000) in paragraph at lines 8170--8187
[][][]\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 8170--8187
[][][]\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 ,
Overfull \hbox (12.78088pt too wide) in paragraph at lines 8213--8213
 []    \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data 
= TRUE)[] 
[3270]
Underfull \hbox (badness 1642) in paragraph at lines 8222--8244
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o
f the form
[3271] [3272] [3273] [3274]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8487--8487
 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni
terEM = 25, 
Underfull \hbox (badness 10000) in paragraph at lines 8535--8537
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3275]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8579--8579
 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio
ns be printed[] 
[3276] [3277] [3278] [3279] [3280] [3281] [3282] [3283] [3284] [3285] [3286]
[3287]
Underfull \hbox (badness 10000) in paragraph at lines 9336--9343
[][][]\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 9347--9347
 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me
thod = "ML") 
[3288] [3289] [3290] [3291] [3292]pdfTeX warning (ext4): destination with the s
ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9698 ...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.9698 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                   [3293]
Underfull \hbox (badness 10000) in paragraph at lines 9718--9721
[]\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 9762--9765
[]\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 9762--9765
\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
[3294] [3295] [3296] [3297] [3298] [3299] [3300] [3301] [3302] [3303] [3304]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10442--10442
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights, 
[3305]
Underfull \hbox (badness 1596) in paragraph at lines 10471--10497
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o
f the form
[3306] [3307] [3308]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10647--10647
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
[3309] [3310]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 10798--10798
 []            \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma =
 NULL, ...)[] 
Underfull \hbox (badness 2213) in paragraph at lines 10809--10814
[]\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[][][]
[3311]
Underfull \hbox (badness 6961) in paragraph at lines 10831--10835
[]\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=
Underfull \hbox (badness 10000) in paragraph at lines 10850--10852
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3312] [3313] [3314] [3315]
Overfull \hbox (96.18033pt too wide) in paragraph at lines 11141--11141
 []\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 11142--11142
 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4
.0.0;  ("matrix" in older R)[] 
[3316] [3317] [3318] [3319] [3320] [3321]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11532--11532
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3322] [3323] [3324] [3325] [3326] [3327]
Underfull \hbox (badness 6268) in paragraph at lines 11919--11929
[][][]\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 ,
[3328] [3329] [3330] [3331]
Underfull \hbox (badness 10000) in paragraph at lines 12180--12186
[][][]\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 ,
[3332] [3333] [3334] [3335] [3336]
Underfull \hbox (badness 6876) in paragraph at lines 12502--12504
[]\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
[3337] [3338]
Underfull \hbox (badness 2452) in paragraph at lines 12658--12665
[][][]\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 ,
[3339]
Underfull \hbox (badness 10000) in paragraph at lines 12723--12729
[][][]\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 ,
[3340] [3341] [3342] [3343] [3344] [3345] [3346] [3347] [3348]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 13312--13312
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3349] [3350] [3351] [3352] [3353]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13677--13677
 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 
0, id = 0.05)[] 
[3354]
Underfull \hbox (badness 10000) in paragraph at lines 13704--13707
[]\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
[3355]
Underfull \hbox (badness 1838) in paragraph at lines 13747--13754
[]\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 13747--13754
[]\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 13804--13804
 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect,
 panel,[] 
[3356]
Underfull \hbox (badness 10000) in paragraph at lines 13811--13814
[]\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 13811--13814
[]\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
[3357]
Underfull \hbox (badness 10000) in paragraph at lines 13919--13922
[]\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
[3358] [3359]
Underfull \hbox (badness 10000) in paragraph at lines 14013--14015
[][][]\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 ,
[3360] [3361] [3362] [3363] [3364] [3365] [3366] [3367]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 14537--14537
 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female",
"Male","Male"),[] 
[3368] [3369] [3370] [3371] [3372] [3373] [3374] [3375] [3376]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.15190 ...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.15190 ...Extract Random Effects}{random.effects}
                                                   [3377] [3378] [3379]
[3380] [3381] [3382] [3383] [3384] [3385] [3386]
Underfull \hbox (badness 2126) in paragraph at lines 15830--15834
[]\T1/ptm/m/n/10 Charles F. Minto, Thomas W. Schnider and Steven L. Shafer (199
7). Phar-ma-coki-net-
[3387]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 15838--15838
 []\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 
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 []    \T1/pcr/m/n/9 stopifnot(all.equal(BSA, Wt^{0.425} * Ht^{0.725} * 0.00718
4, tol = 1.5e-5),[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 15858--15858
 []              \T1/pcr/m/n/9 all.equal(LBM, LBMfn(Wt, Ht, Sex),              
   tol = 7e-7)[] 
[3388]
Underfull \hbox (badness 1009) in paragraph at lines 15888--15897
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3389] [3390]
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 []          \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi
st = FALSE, ...)[] 
[3391] [3392] [3393] [3394] [3395]
Underfull \hbox (badness 10000) in paragraph at lines 16370--16376
[][][]\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 ,
[3396]
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 []         \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG
en, ...)[] 
[3397] [3398] [3399] [3400] [3401] [3402] [3403]
Underfull \hbox (badness 1728) in paragraph at lines 16889--16892
[]\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou
t-put in the
[3404] [3405] [3406] [3407] [3408]
Underfull \hbox (badness 1803) in paragraph at lines 17223--17232
\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 17223--17232
\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 17223--17232
\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)
[3409]
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[]\T1/pcr/m/n/10 "Constant plus power of variance
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[]\T1/pcr/m/n/10 "Constant plus proportion of variance
[3410] [3411] [3412] [3413]
Underfull \hbox (badness 10000) in paragraph at lines 17545--17553
[][][]\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 ,
[3414] [3415] [3416] [3417]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 17817--17817
 []\T1/pcr/m/n/9 # Generate some synthetic data using the two-component error m
odel and use 
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 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v
ariance function[] 
[3418] [3419] [3420] [3421] [3422] [3423]
Underfull \hbox (badness 10000) in paragraph at lines 18255--18265
[][][]\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 18255--18265
[][][]\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 ,
[3424]
Underfull \hbox (badness 3579) in paragraph at lines 18293--18298
\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
[3425]
Underfull \hbox (badness 3579) in paragraph at lines 18357--18362
\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
[3426]
Underfull \hbox (badness 3579) in paragraph at lines 18420--18425
\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
[3427]
Underfull \hbox (badness 1577) in paragraph at lines 18481--18483
[]\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
[3428]
Underfull \hbox (badness 3579) in paragraph at lines 18546--18551
\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 18579--18588
[][][]\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 18579--18588
[][][]\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 ,
[3429]
Underfull \hbox (badness 3579) in paragraph at lines 18618--18623
\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
[3430] [3431]
Underfull \hbox (badness 1009) in paragraph at lines 18764--18773
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3432] [3433]
Underfull \hbox (badness 1009) in paragraph at lines 18896--18905
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3434] [3435] [3436] [3437] [3438] [3439] [3440] [3441] [3442]) (./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}
                                                   [3443]
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 []         \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored =
 FALSE,[] 
[3444] [3445] [3446]
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,[] 
[3447]
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)[] 
[3448] [3449]
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,[] 
[3450]) (./rpart-pkg.tex
Chapter 27.
[3451] [3452] [3453] [3454]
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 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse =
 TRUE, ...)[] 
[3455] [3456] [3457] [3458]
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
[3459] [3460]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 738--738
 []     \T1/pcr/m/n/10 filename = paste(deparse(substitute(tree)), ".ps", sep =
 ""),[] 
Underfull \hbox (badness 10000) in paragraph at lines 771--775
[]\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
[3461] [3462] [3463]
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"),[] 
[3464] [3465] [3466] [3467]
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, ...)[] 
Underfull \hbox (badness 2846) in paragraph at lines 1243--1245
[]\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
[3468]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1287--1287
 []\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, 
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 []              \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate 
= 2, xval = 10,[] 
[3469] [3470] [3471] [3472] [3473] [3474] [3475]
Underfull \hbox (badness 1565) in paragraph at lines 1760--1763
[]\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 ',
[3476]
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 []     \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n =
 FALSE,[] 
[3477] [3478] [3479]) (./spatial-pkg.tex [3480]
Chapter 28.
[3481] [3482] [3483] [3484] [3485] [3486]
Underfull \hbox (badness 10000) in paragraph at lines 423--427
[3487] [3488] [3489] [3490] [3491] [3492] [3493] [3494] [3495] [3496] [3497]
[3498] [3499]) (./survival-pkg.tex [3500]
Chapter 29.
[3501] [3502]
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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.[] 
[3503] [3504]
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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
[3505] [3506]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}
                                                   [3507]
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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)[] 
[3508]
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 []    \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog),
 lung)[] 
[3509] [3510] [3511]
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 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) #
2 year survival 
[3512]
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 []    \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan",
"II.Borgan"),[] 
[3513] [3514]
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 []   \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz
e=stratsizes,[] 
[3515] [3516] [3517]
Underfull \hbox (badness 1097) in paragraph at lines 1106--1108
[]\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[] 
[3518] [3519]
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 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat
um), data=infert) 
[3520]
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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.1308 ...erapy for Stage B/C colon cancer}{colon}
                                                  
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 []  \T1/pcr/m/n/10 cluster, ymin, ymax, timewt= c("n", "S", "S/G", "n/G", "n/G
2", "I"),[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 1408--1408
 []  \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke
epstrata=10, ...)[] 
[3522] [3523] [3524]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 1598--1598
 [] \T1/pcr/m/n/10 timewt = c("n", "S", "S/G", "n/G", "n/G2", "I"), cluster, in
fluence =0,[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 1647--1647
 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob
al=TRUE) 
[3525] [3526] [3527] [3528] [3529]
Underfull \hbox (badness 10000) in paragraph at lines 1964--1979
[]\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
Underfull \hbox (badness 7486) in paragraph at lines 1964--1979
\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 +
[3530]
Underfull \hbox (badness 3861) in paragraph at lines 2048--2052
[][][]\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 ,
[3531]
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 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix
=TRUE)[] 
[3532] [3533] [3534] [3535] [3536] [3537] [3538] [3539]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2717--2717
 [] \T1/pcr/m/n/9 [1] "extreme"     "logistic"    "gaussian"    "weibull"     "
exponential"[] 
[3540]
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 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, 
etype, 
[3541] [3542] [3543]
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 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t
df = 5,[] 
[3544] [3545] [3546]
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[3548]
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 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt
y(id), kidney) 
[3549]
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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 3366--3368
[]\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"),[] 
[3550] [3551]
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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 )))[] 
[3552] [3553]
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 [] [] 
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[3555]
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 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential
ly the same.[] 
[3556] [3557] [3558] [3559] [3560] [3561] [3562]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4210--4210
 []                    \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 )))[] 
[3563] [3564]
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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))[] 
[3565]
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 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] 
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 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1])  # differences: yhat[2:
4] - yhat[1][] 
[3566] [3567]
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[3569] [3570] [3571]
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 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca
le=1,[] 
[3572] [3573] [3574]
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 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), 
collapse,[] 
[3575] [3576]
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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)[] 
[3577]
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 []\T1/pcr/m/n/9 pct <- 1:98/100   # The 100th percentile of predicted survival
 is at +infinity[] 
[3578]
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 []  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE
, ...)[] 
[3579]
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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
[3580] [3581] [3582]
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 []\T1/pcr/m/n/10 pseudo(fit, times, type, addNA=TRUE, data.frame=FALSE, minus1
=FALSE, ...) 
[3583]
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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[] 
[3584]
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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, ...)[] 
[3585] [3586]
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 []  \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year=
entry.dt),[] 
[3587]
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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)) +[] 
[3588] [3589] [3590] [3591] [3592] [3593] [3594]
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 []       \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe
tas")), ...)[] 
[3595] [3596] [3597]
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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
[3598] [3599] [3600] [3601] [3602]
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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)[] 
[3603] [3604]
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 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id
, timefix = TRUE) 
[3605]
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 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)]  # rem
ove duplicate times[] 
[3606]
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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.7224 ...ata from a soldering experiment}{solder}
                                                   [3607]
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 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1,
 col = 1, 
[3608] [3609] [3610] [3611] [3612] [3613]
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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,[] 
[3614] [3615] [3616] [3617]
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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 ),[] 
[3618] [3619] [3620] [3621]
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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
[3622] [3623]
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 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat
e0="(s0)", 
[3624] [3625] [3626]
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 []                  \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1
, year=accept.dt),[] 
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 []        \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv
idual.h",[] 
[3627]
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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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 []                      \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d
t-entry.dt)),[] 
[3628]
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 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival 
by 1/2 years[] 
[3629] [3630] [3631] [3632]
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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 
,
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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"),[] 
[3633] [3634] [3635]
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 []        \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi
x=TRUE,[] 
[3636]
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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,
[3637] [3638]
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 []\T1/pcr/m/n/9 #  There are no interval censored subjects, only left-censored
 (status=3),[] 
[3639] [3640] [3641] [3642] [3643]
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 []\T1/pcr/m/n/10 survfitcoxph.fit(y, x, wt, x2, risk, newrisk, strata, se.fit,
 survtype, 
[3644]
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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
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 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # 
use concordance 
[3645] [3646] [3647]
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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
[3648]
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 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi
on. The survreg[] 
[3649]
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[3650] [3651]
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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 )[] 
[3652]
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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 )[] 
[3653] [3654] [3655]
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 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100
0, data=test)[] 
[3656] [3657]
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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[] 
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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)[] 
[3658] [3659] [3660] [3661] [3662] [3663] [3664]
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 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l
inear",[] 
[3665] [3666] [3667]) [3668] (./fullrefman.ind [3669] [3670] [3671] [3672]
[3673] [3674] [3675] [3676] [3677] [3678] [3679] [3680] [3681] [3682] [3683]
[3684] [3685] [3686] [3687] [3688] [3689] [3690] [3691] [3692] [3693]
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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.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 , 
[3694] [3695] [3696] [3697] [3698] [3699]
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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.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.tp.smooth.spec\T1/ptm/m/n/10 , 
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[]\T1/pcr/m/n/10 qr.coef,sparseQR,ddenseMatrix-method 
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[]\T1/pcr/m/n/10 qr.fitted,sparseQR,ddenseMatrix-method 
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[]\T1/pcr/m/n/10 qr.fitted,sparseQR,Matrix-method 
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[]\T1/pcr/m/n/10 qr.fitted,sparseQR,matrix-method 
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[]\T1/pcr/m/n/10 qr.fitted,sparseQR,numeric-method 
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[]\T1/pcr/m/n/10 qr.qty,sparseQR,ddenseMatrix-method 
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[]\T1/pcr/m/n/10 qr.qy,sparseQR,ddenseMatrix-method 
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[]\T1/pcr/m/n/10 qr.resid,sparseQR,ddenseMatrix-method 
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[]\T1/pcr/m/n/10 qr.resid,sparseQR,numeric-method 
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[]\T1/pcr/m/n/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE 
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[]\T1/pcr/m/n/10 rbind2,atomicVector,ddiMatrix-method 
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[]\T1/pcr/m/n/10 rbind2,atomicVector,ldiMatrix-method 
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[]\T1/pcr/m/n/10 rbind2,atomicVector,Matrix-method 
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[]\T1/pcr/m/n/10 rbind2,ddiMatrix,atomicVector-method 
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[]\T1/pcr/m/n/10 rbind2,denseMatrix,denseMatrix-method 
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[]\T1/pcr/m/n/10 rcond,denseMatrix,character-method 
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[]\T1/pcr/m/n/10 rcond,dgeMatrix,character-method 
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[]\T1/pcr/m/n/10 rcond,dpoMatrix,character-method 
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[]\T1/pcr/m/n/10 rcond,sparseMatrix,character-method 
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[]\T1/pcr/m/n/10 Schur,diagonalMatrix,logical-method 
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[]\T1/pcr/m/n/10 Schur,generalMatrix,logical-method 
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[]\T1/pcr/m/n/10 Schur,symmetricMatrix,logical-method 
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[]\T1/pcr/m/n/10 Schur,triangularMatrix,logical-method 
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[]\T1/pcr/m/n/10 show,genericFunctionWithTrace-method 
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[]\T1/pcr/m/n/10 show,MethodWithNextWithTrace-method 
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[]\T1/pcr/m/n/10 show,refClassRepresentation-method 
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[]\T1/pcr/m/n/10 solve,CHMfactor,denseMatrix-method 
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[]\T1/pcr/m/n/10 solve,CHMfactor,sparseMatrix-method 
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[]\T1/pcr/m/n/10 solve,dgCMatrix,denseMatrix-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,ANY-method 
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[]\T1/pcr/m/n/10 solve,MatrixFactorization,missing-method 
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[]\T1/pcr/m/n/10 summarize_check_packages_in_dir_results 
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[]\T1/pcr/m/n/10 summarize_check_packages_in_dir_timings 
[3819] [3820] [3821] [3822] [3823]
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[]\T1/pcr/m/n/10 tcrossprod,ANY,RsparseMatrix-method 
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[]\T1/pcr/m/n/10 tcrossprod,ANY,symmetricMatrix-method 
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[3824]
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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
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[]\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac
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pty.names = TRUE,[] 
[28]
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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
[29] [30] [31] [32]
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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)[] 
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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
[33] [34] [35] [36]
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 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla
ss "POSIXlt"[] 
[37]
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 []  \T1/pcr/m/n/9 tmp <- read.delim(file.path(R.home("share"), "zoneinfo", "zo
ne1970.tab"),[] 
[38] [39]
Underfull \hbox (badness 1107) in paragraph at lines 2566--2568
[]\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
[40] [41]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 2733--2733
 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back
tick=FALSE), 
[42] [43] [44] [45] [46] [47] [48] [49] [50] [51]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 3406--3406
 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", nus), col = nus + 2, 
lwd = 1, bty="n")[] 
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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)[] 
[52]
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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 = ", ")),[] 
[53] [54] [55] [56] [57] [58]
Underfull \hbox (badness 10000) in paragraph at lines 3897--3899
[]\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim
-ited by set-ting
[59] [60] [61] [62] [63] [64] [65] [66]
Underfull \hbox (badness 4927) in paragraph at lines 4395--4399
[]\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
[67]
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 []             \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif
f")))[] 
[68]
Underfull \hbox (badness 4595) in paragraph at lines 4555--4558
[]\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par
-i-son[][][] and
[69] [70]
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 []\T1/pcr/m/n/9 cat(paste(letters, 100* 1:26), fill = TRUE, labels = paste0("{
", 1:10, "}:"))[] 
[71]
Underfull \hbox (badness 1199) in paragraph at lines 4749--4755
[]\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
[72] [73]
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 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna
mes (default)[] 
[74] [75] [76] [77]
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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
[78] [79] [80] [81] [82] [83]
Underfull \hbox (badness 1270) in paragraph at lines 5615--5623
[]\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",
[84] [85] [86] [87] [88] [89] [90] [91] [92]
Underfull \hbox (badness 1796) in paragraph at lines 6184--6192
[]\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 : / /
[93] [94] [95]
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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_)))[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6384--6384
 []\T1/pcr/m/n/9 showC(NpNA)# but not always is {shows  \TS1/pcr/m/n/9 '\T1/pcr
/m/n/9 (R = NaN, I = NA)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 on some platforms}[] 
[96] [97]
Underfull \hbox (badness 1635) in paragraph at lines 6586--6589
[]\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
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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
[98]
Underfull \hbox (badness 1308) in paragraph at lines 6633--6641
[]\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
[99] [100]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 6797--6797
 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e
ncoding"))[] 
[101]
Underfull \hbox (badness 4505) in paragraph at lines 6849--6852
[]\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de
fault", "internal",
[102] [103]
Underfull \hbox (badness 1997) in paragraph at lines 6986--6991
[]\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 ,
[104] [105] [106]
Underfull \hbox (badness 10000) in paragraph at lines 7234--7236
[]\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
Underfull \hbox (badness 6592) in paragraph at lines 7276--7283
\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 7276--7283
[]\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-
[107] [108]
Underfull \vbox (badness 10000) has occurred while \output is active [109]
Underfull \vbox (badness 10000) has occurred while \output is active [110]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7480--7480
 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE"))
; close(con)[] 
[111] [112] [113] [114]
Underfull \hbox (badness 10000) in paragraph at lines 7814--7816
[]\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th
e call to
[115] [116] [117]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7973--7973
 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org")   ## this redirect
s to https://[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 7975--7975
 []\T1/pcr/m/n/9 ## curlGetHeaders("ftp://cran.r-project.org") ## ftp::// suppo
rt is vanishing[] 
[118] [119] [120] [121]
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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)[] 
[122]
Underfull \hbox (badness 10000) in paragraph at lines 8322--8332
[]\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 8322--8332
[][][]\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
[123] [124] [125]
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 []                 \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l
ength.out = 3),[] 
[126] [127] [128] [129]
Underfull \hbox (badness 10000) in paragraph at lines 8842--8854
\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
[130] [131] [132] [133] [134] [135]
Underfull \hbox (badness 10000) in paragraph at lines 9291--9295
[]\T1/pcr/m/n/10 .Defunct []\T1/ptm/m/n/10 is called from de-funct func-tions. 
Func-tions should be listed in
[136] [137]
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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})[] 
Overfull \hbox (60.78088pt too wide) in paragraph at lines 9412--9412
 []        \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"),[] 
[138] [139]
Underfull \hbox (badness 5403) in paragraph at lines 9544--9546
[]\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
Underfull \hbox (badness 6063) in paragraph at lines 9563--9565
[]\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
[140] [141] [142]
Underfull \hbox (badness 1603) in paragraph at lines 9794--9797
[]\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
[143] [144] [145] [146] [147] [148] [149] [150] [151]
Underfull \hbox (badness 1917) in paragraph at lines 10410--10415
[]\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
[152]
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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 10466--10466
 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling
 on both levels[] 
[153] [154]
Underfull \hbox (badness 1168) in paragraph at lines 10568--10573
[]\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
[155]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 10670--10670
 []\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(...))))[] 
[156] [157]
Underfull \hbox (badness 2828) in paragraph at lines 10791--10796
[][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ 754-[]19
85$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia .
Underfull \hbox (badness 10000) in paragraph at lines 10791--10796
\T1/pcr/m/n/10 org / wiki / IEEE _ 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr
/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _
Underfull \hbox (badness 10000) in paragraph at lines 10791--10796
\T1/pcr/m/n/10 754-[]2019$[][]\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 :
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 []     \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA
ttributes"))[] 
[158]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 10896--10896
 []\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, ..[] 
[159] [160]
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 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon
th.abb[5:9])) 
[161] [162] [163]
Underfull \hbox (badness 6396) in paragraph at lines 11242--11250
[]\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
[164] [165] [166]
Underfull \hbox (badness 10000) in paragraph at lines 11468--11471
[]\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
[167] [168] [169] [170] [171] [172]
Underfull \hbox (badness 2744) in paragraph at lines 11904--11906
[]\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
[173]
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 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12
52 loc.) | ....[] 
[174] [175] [176]
Underfull \hbox (badness 5288) in paragraph at lines 12179--12181
[]\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
[177]
Underfull \hbox (badness 10000) in paragraph at lines 12246--12249
[]\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 12264--12266
[]\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for
[178] [179] [180] [181]
Underfull \hbox (badness 10000) in paragraph at lines 12514--12516
[]\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 12557--12559
[]\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
[182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13375--13375
 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes.   Could provide 
a constructor[] 
[194] [195] [196] [197] [198] [199] [200] [201] [202] [203]
Underfull \hbox (badness 2253) in paragraph at lines 14100--14102
[]\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
[204] [205]
Underfull \hbox (badness 2573) in paragraph at lines 14268--14270
[]\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 =
[206] [207]
Underfull \hbox (badness 10000) in paragraph at lines 14427--14429
[]\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See
[208] [209]
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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 14559--14562
[][][]$\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[] 
[210]
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 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode
 = "0777")[] 
[211]
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[][][]\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 ,
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 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu
rsive = TRUE)[] 
[212]
Underfull \hbox (badness 10000) in paragraph at lines 14778--14781
[]\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:[] 
[213]
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 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F
ALSE, 
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[]\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,
[214] [215] [216]
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 []       \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING) 
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 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO
DING)[] 
[217] [218] [219] [220]
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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[] 
[221]
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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
[222]
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[][][]\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 ,
[223]
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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),[] 
[224] [225]
Underfull \hbox (badness 10000) in paragraph at lines 15612--15614
[]\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)),[] 
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[]\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
[226]
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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
[227]
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[]\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(*,
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[]\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
Underfull \hbox (badness 2426) in paragraph at lines 15779--15781
[]\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 15790--15798
[]\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
[228] [229]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15898--15898
 []\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[] 
Underfull \vbox (badness 10000) has occurred while \output is active [230]
[231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241]
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 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil
l a DLLInfoList[] 
[242] [243]
Underfull \hbox (badness 2418) in paragraph at lines 16863--16867
\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 16870--16873
[]\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
Underfull \hbox (badness 2326) in paragraph at lines 16905--16912
[][][]\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 ,
[244] [245]
Underfull \hbox (badness 10000) in paragraph at lines 17012--17016
[]\T1/ptm/m/n/10 The spe-cial case []\T1/pcr/m/n/10 bindtextdomain(NULL) []\T1/
ptm/m/n/10 calls C level
Underfull \hbox (badness 3302) in paragraph at lines 17012--17016
[]\T1/pcr/m/n/10 textdomain(textdomain(NULL)) []\T1/ptm/m/n/10 for the pur-pose
 of flush-ing (i.e., emp-ty-ing) the
[246]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17075--17075
 []\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:[] 
[248] [249]
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 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F
ALSE, 
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[]\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][]
[] (or char-ac-ter string for
[250] [251] [252] [253]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17575--17575
 []  \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around 
"checking hack"[] 
[254]
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 []\T1/pcr/m/n/9 name.rex <- "(?<first>[[:upper:]][[:lower:]]+) (?<last>[[:uppe
r:]][[:lower:]]+)"[] 
Underfull \vbox (badness 10000) has occurred while \output is active [255]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 17660--17660
 []        \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F
ALSE)[] 
[256] [257] [258] [259]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18033--18033
 []\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))) 
[260]
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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"))[] 
[261] [262] [263]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 18307--18307
 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F
ALSE) 
[264] [265] [266] [267] [268]
Underfull \hbox (badness 1163) in paragraph at lines 18653--18655
[]\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 /
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 []\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.[] 
[269]
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 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se
t = TRUE, 
[270]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 18785--18785
 []              \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,[] 
[271]
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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[] 
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 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share
 an environment:[] 
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 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi
ng "srcref" :[] 
[272] [273]
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 []\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):[] 
[274] [275] [276]
Underfull \hbox (badness 10000) in paragraph at lines 19194--19196
[]\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
[277] [278] [279] [280] [281]
Underfull \hbox (badness 10000) in paragraph at lines 19532--19538
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[]\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac
le . com / cd / E19957-[]01 / 806-[]3568 / ncg _
[282] [283] [284]
Underfull \hbox (badness 4699) in paragraph at lines 19777--19780
[]\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 ,
[285] [286]
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 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = "
GMT")[] 
[287] [288] [289]
Underfull \hbox (badness 4739) in paragraph at lines 20040--20042
[]\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere
d, see
[290]
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 []\T1/pcr/m/n/9 isSymmetric(D3)                         # FALSE (as row and co
lumn names differ)[] 
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 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE  (as names are 
not checked)[] 
[291] [292] [293] [294] [295] [296] [297] [298] [299]
Underfull \hbox (badness 1975) in paragraph at lines 20709--20712
[]\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
[300] [301] [302] [303] [304] [305]
Underfull \hbox (badness 1077) in paragraph at lines 21124--21129
[]\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
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[][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p
tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs /
[306]
Underfull \hbox (badness 1112) in paragraph at lines 21212--21221
[]\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 ,
[307]
Underfull \hbox (badness 2970) in paragraph at lines 21272--21275
[]\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 21272--21275
\T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It 
may be opened by
[308] [309]
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[]\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use
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[][][]\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
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[]\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-
[310] [311]
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[][][]\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 ,
[312]
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[]\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
[313]
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[]\T1/ptm/m/n/10 A small num-ber of files (some of the API header files) are di
s-tributed un-der the
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\T1/ptm/m/n/10 LESSER GNU GEN-ERAL PUB-LIC LI-CENSE, ver-sion 2.1 or later. A c
opy of
Underfull \hbox (badness 5133) in paragraph at lines 21712--21717
\T1/ptm/m/n/10 this li-cense is in file `\T1/pcr/m/n/10 $R_SHARE_DIR/licenses/L
GPL-2.1\T1/ptm/m/n/10 ' and can be viewed
Underfull \hbox (badness 10000) in paragraph at lines 21712--21717
\T1/ptm/m/n/10 by []\T1/pcr/m/n/10 RShowDoc("LGPL-2.1")[]\T1/ptm/m/n/10 . Ver-s
ion 3 of the li-cense can be dis-played by
[314] [315] [316]
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
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 []           \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = 
FALSE)[] 
[317]
Underfull \hbox (badness 3343) in paragraph at lines 21945--21949
[][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil
e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/
m/n/10 for many more file han-dling func-tions and
[318] [319]
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 []          \T1/pcr/m/n/9 identical(L$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))),[] 
[320] [321]
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 []\T1/pcr/m/n/9 ## This however annihilates all objects in .GlobalEnv with the
 same names ![] 
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 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w
/ same name in .GlobalEnv[] 
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[]\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways 
be sup-
[322] [323]
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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
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 []\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 Sys.setenv("LANGUAGE" = "es") # set the language for error/war
ning messages[] 
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 [] \T1/pcr/m/n/9 sg <- matrix(unlist(strsplit(strsplit(Sys.getlocale(), sep)[[
1]], "=")), nrow=2)[] 
[324] [325]
Underfull \hbox (badness 1400) in paragraph at lines 22575--22579
[][][]\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
[326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] [337]
[338]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 23419--23419
 []\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 23420--23420
 []        \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 23423--23423
 []\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)[] 
[339]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 23520--23520
 []\T1/pcr/m/n/9 match.arg(c("a", ""),  c("", NA, "bb", "abc"), several.ok=TRUE
) # |-->  "abc"[] 
[340]
Underfull \hbox (badness 1655) in paragraph at lines 23554--23558
[]\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion 
(also known as a `clo-sure'):
[341] [342] [343]
Underfull \hbox (badness 2277) in paragraph at lines 23803--23806
[]\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross\T1/ptm/m/n/10 products, [][]
[]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcross
prod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able.
[344] [345] [346] [347] [348] [349] [350] [351] [352]
Underfull \hbox (badness 1484) in paragraph at lines 24392--24400
[]\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 24392--24400
\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 /
[353] [354]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 24466--24466
 []      \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y =
 all,[] 
[355] [356] [357] [358] [359] [360] [361] [362]
Underfull \hbox (badness 1448) in paragraph at lines 25014--25022
[]\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 =
[363]
Underfull \hbox (badness 3849) in paragraph at lines 25129--25134
[]\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
[364]
Underfull \hbox (badness 2165) in paragraph at lines 25206--25212
[]\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,
Underfull \hbox (badness 1199) in paragraph at lines 25206--25212
\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 25206--25212
\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,
[365] [366] [367]
Underfull \hbox (badness 2237) in paragraph at lines 25369--25371
[]\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1
0 c("bytes", "chars",
[368] [369] [370]
Underfull \hbox (badness 6188) in paragraph at lines 25596--25599
[]\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
[371] [372] [373]
Underfull \hbox (badness 1521) in paragraph at lines 25781--25795
\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-
[374] [375] [376] [377]
Underfull \hbox (badness 2197) in paragraph at lines 26095--26099
[]\T1/ptm/m/n/10 Loading a names-pace should where pos-si-ble be silent, with s
tartup mes-sages given by
Underfull \hbox (badness 4048) in paragraph at lines 26095--26099
[]\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
[378]
Underfull \hbox (badness 2846) in paragraph at lines 26109--26113
[]\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 26109--26113
\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
Overfull \hbox (12.78088pt too wide) in paragraph at lines 26151--26151
 []\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 26155--26155
 []              \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk
gs"))[] 
[379]
Underfull \hbox (badness 10000) in paragraph at lines 26204--26210
[]\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 26204--26210
[]\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 26217--26219
[]\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%
[380]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 26284--26284
 [] \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:[] 
[381] [382] [383]
Underfull \hbox (badness 8189) in paragraph at lines 26479--26485
[]\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[][][]
[384] [385] [386]
Underfull \hbox (badness 1694) in paragraph at lines 26704--26707
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor with suit-able nu-meric ver-sion strings
 (see `De-tails');
[387] [388] [389] [390]
Underfull \hbox (badness 1603) in paragraph at lines 26976--26978
[]\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a
re con-verted by
[391] [392]
Underfull \hbox (badness 1210) in paragraph at lines 27103--27111
[]\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-
[393] [394]
Underfull \hbox (badness 3271) in paragraph at lines 27323--27326
[]\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men
t vari-able
[395] [396]
Underfull \vbox (badness 3780) has occurred while \output is active [397]
[398]
Underfull \hbox (badness 3138) in paragraph at lines 27629--27635
[]\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 27629--27635
\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 27629--27635
\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 1194) in paragraph at lines 27642--27645
[]\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/pcr/m/n/10 create.post[
][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/pcr/m/n/10 bug.report[][][] []\T1/pt
m/m/n/10 and
Underfull \hbox (badness 1389) in paragraph at lines 27668--27670
[]\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na
l HTTP server, see
Underfull \hbox (badness 10000) in paragraph at lines 27695--27701
[]\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by
Underfull \hbox (badness 3826) in paragraph at lines 27710--27715
[]\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/
m/n/10 (and in-di-rectly
[399]
Underfull \hbox (badness 1009) in paragraph at lines 27728--27731
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 27744--27747
[]\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle
d -- see
Underfull \hbox (badness 10000) in paragraph at lines 27752--27758
[]\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 27752--27758
\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 27752--27758
\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 27752--27758
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 27767--27774
[]\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][][]\T1/pcr/m/n/10 up
date.packages[][][][]\T1/ptm/m/n/10 . De-faults to
Underfull \hbox (badness 2384) in paragraph at lines 27767--27774
[]\T1/pcr/m/n/10 c(CRAN="@CRAN@")[]\T1/ptm/m/n/10 , a value that causes some ut
il-i-ties to prompt for a CRAN
Underfull \hbox (badness 2837) in paragraph at lines 27767--27774
\T1/ptm/m/n/10 mir-ror. To avoid this do set the CRAN mir-ror, by some-thing li
ke []\T1/pcr/m/n/10 local({r
Underfull \hbox (badness 10000) in paragraph at lines 27767--27774
\T1/pcr/m/n/10 <- getOption("repos"); r["CRAN"] <- "http://my.local.cran";
[400] [401] [402] [403] [404]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 28115--28115
 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec,
 300X faster[] 
Underfull \hbox (badness 10000) in paragraph at lines 28128--28132
[]\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex.
y)] = FUN(X[arrayindex.x],
[405] [406]
Underfull \hbox (badness 1210) in paragraph at lines 28275--28278
[]\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,
[407] [408] [409] [410]
Underfull \hbox (badness 7133) in paragraph at lines 28557--28563
[][][]\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 28579--28579
 []\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 28591--28591
 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha
t you wanted[] 
[411]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 28604--28604
 []\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 more vectorized behaviour, i.e. zero-length recycling :
[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 28608--28608
 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0=
TRUE) # -> character(0)[] 
[412] [413]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28791--28791
 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow()  # same as nrow(subset(mt
cars, cyl == 4))[] 
[414]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 28806--28806
 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so 
is not evaluated[] 
Underfull \hbox (badness 1360) in paragraph at lines 28861--28865
[]\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 =
[415] [416] [417] [418] [419]
Underfull \hbox (badness 2277) in paragraph at lines 29173--29178
\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
[420] [421]
Underfull \hbox (badness 1533) in paragraph at lines 29289--29293
[]\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/pcr/m/n/10 `\T1/p
cr/m/n/10 name\TS1/pcr/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\T1
/pcr/m/n/10 get[][][](name, envir =
[422]
Underfull \hbox (badness 1796) in paragraph at lines 29357--29360
[]\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
[423] [424] [425]
Underfull \hbox (badness 10000) in paragraph at lines 29561--29564
[]\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
[426] [427] [428] [429] [430] [431] [432] [433] [434] [435]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 30256--30256
 []           \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))[] 
[436] [437] [438] [439] [440]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 30549--30549
 []\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 30560--30560
 []\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 30566--30566
 []\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)[] 
[441]
Underfull \hbox (badness 7415) in paragraph at lines 30662--30666
[]\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
[442]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 30683--30683
 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu
l bottom-right note[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 30729--30729
 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind =
 NULL)[] 
[443] [444]
Underfull \hbox (badness 3713) in paragraph at lines 30874--30885
[]\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
[445] [446]
Underfull \hbox (badness 1248) in paragraph at lines 31026--31033
\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 31026--31033
\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 /
[447]
Underfull \hbox (badness 1533) in paragraph at lines 31144--31147
[]\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
[448] [449] [450]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 31289--31289
 []     \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m
ax", "min"))[] 
Underfull \hbox (badness 1038) in paragraph at lines 31307--31318
[]\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
[451] [452]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 31451--31451
 []\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 31453--31453
 []\T1/pcr/m/n/9 rapply(X, deparse, control = "all") # passing extras. argument
 of deparse()[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 31454--31454
 []\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 31455--31455
 []\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 31456--31456
 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character",                      h
ow = "unlist")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 31463--31463
 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h
ow = "unlist")[] 
[453] [454] [455] [456] [457]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 31771--31771
 []\T1/pcr/m/n/9 ## Bit representation  [ sign | exponent | mantissa ] of doubl
e prec numbers :[] 
Overfull \hbox (42.18039pt too wide) in paragraph at lines 31773--31773
 []\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 31783--31783
 []\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 31784--31784
 []\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 [458]
[459]
Underfull \hbox (badness 4048) in paragraph at lines 31879--31884
[]\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 31879--31884
\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 ,
[460] [461] [462] [463] [464] [465] [466] [467]
Underfull \hbox (badness 2080) in paragraph at lines 32417--32427
[]\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),
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 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene
d as needed.[] 
[468] [469] [470] [471] [472] [473] [474]
Underfull \hbox (badness 7558) in paragraph at lines 32971--32975
[]\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 32981--32983
[]\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
[475]
Underfull \hbox (badness 10000) in paragraph at lines 32992--32994
[]\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 32995--32999
[]\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 .
[476] [477] [478] [479] [480]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 33366--33366
 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3)         # length 24, 3 complete 
replications[] 
[481]
Underfull \hbox (badness 10000) in paragraph at lines 33437--33441
[][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] []
[]NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple
x_[][][]
[482] [483] [484]
Underfull \hbox (badness 2302) in paragraph at lines 33663--33668
[]\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 33663--33668
\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 -
[485] [486]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 33796--33796
 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"))[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 33799--33799
 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 33806--33806
 []      \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y
ears"),[] 
[487] [488] [489] [490] [491] [492] [493]
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 []           \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) 
&& size <= n/2))[] 
[494] [495] [496] [497] [498] [499] [500]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 34691--34691
 []     \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul =
 FALSE)[] 
[501]
Underfull \hbox (badness 1158) in paragraph at lines 34795--34800
[]\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
[502] [503]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 34981--34981
 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data
", sep = "\n") 
[504] [505] [506] [507]
Underfull \hbox (badness 4752) in paragraph at lines 35241--35244
[]\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 35245--35251
[]\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
[508] [509] [510] [511] [512] [513] [514] [515] [516] [517]
Underfull \hbox (badness 10000) in paragraph at lines 35915--35926
[]\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
Underfull \hbox (badness 3271) in paragraph at lines 35915--35926
\T1/ptm/m/n/10 the shell. It may de-pend on the com-piler used: Mi-crosoft's ru
les for the C run-
Underfull \hbox (badness 10000) in paragraph at lines 35915--35926
\T1/ptm/m/n/10 time are given at [][]$\T1/pcr/m/n/10 https : / / docs . microso
ft . com / en-[]us / cpp / c-[]language /
Underfull \hbox (badness 1635) in paragraph at lines 35915--35926
\T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][
]\T1/ptm/m/n/10 . It may de-pend on the
[518] [519] [520] [521] [522] [523] [524] [525]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 36455--36455
 []         \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index
.return = FALSE)[] 
[526] [527] [528]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 36707--36707
 []              \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length 
= Inf,[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 36709--36709
 []              \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes"
, "keepNA"),[] 
[529]
Underfull \hbox (badness 4954) in paragraph at lines 36752--36758
[][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/
pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T
1/ptm/m/n/10 , see also
Underfull \hbox (badness 5050) in paragraph at lines 36752--36758
[][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \
T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to
[530] [531]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 36863--36863
 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments
 should print:)[] 
[532] [533] [534] [535] [536]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 37206--37206
 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m
/n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 37221--37221
 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is
 being added[] 
[537] [538] [539]
Underfull \hbox (badness 10000) in paragraph at lines 37446--37448
[][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919
799 / functions /
[540] [541] [542]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 37673--37673
 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un
known") 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 37674--37674
 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile =
 FALSE)[] 
[543] [544] [545] [546] [547]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 38005--38005
 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS
E, nowadays often three 
[548]
Underfull \hbox (badness 6110) in paragraph at lines 38101--38111
[]\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 38101--38111
\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 38101--38111
\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 38101--38111
\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 38101--38111
\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
[549]
Underfull \hbox (badness 10000) in paragraph at lines 38157--38163
[]\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 38157--38163
\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 38157--38163
\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
Underfull \hbox (badness 1460) in paragraph at lines 38172--38179
[]\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 38172--38179
\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 38172--38179
\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
[550]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 38234--38234
 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba
ckslashes in[] 
[551] [552] [553]
Underfull \hbox (badness 1484) in paragraph at lines 38407--38411
[]\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
Overfull \hbox (60.78088pt too wide) in paragraph at lines 38469--38469
 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e
xprs = exprs))) 
[554] [555] [556] [557] [558] [559] [560]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 38955--38955
 []\T1/pcr/m/n/9 (fF <- format(.POSIXct(notF))) # was all  NA, now the last is 
still NA (not "NA")[] 
[561] [562]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 39064--39064
 []            \T1/pcr/m/n/10 add the string to the left of the match to the ou
tput.[] 
[563] [564] [565]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 39314--39314
 []        \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p
refix)[] 
[566]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 39358--39358
 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll
apse = "\n")[] 
[567] [568] [569] [570] [571] [572] [573]
Overfull \hbox (52.98038pt too wide) in paragraph at lines 39805--39805
 []\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, ....[] 
[574]
Underfull \hbox (badness 10000) in paragraph at lines 39859--39866
[]\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 39859--39866
[]\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 ).
[575]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 39912--39912
 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau
lt precision 
[576] [577] [578] [579]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 40223--40223
 []    \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw
ise: last"),"\n")[] 
[580] [581] [582]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 40389--40389
 []\T1/pcr/m/n/9 ## whether HOST is set will be shell-dependent e.g. Solaris\TS
1/pcr/m/n/9 ' \T1/pcr/m/n/9 csh does not. 
[583]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 40427--40427
 []\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 40457--40463
[]\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 40457--40463
\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.
Underfull \hbox (badness 4792) in paragraph at lines 40476--40481
[]\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 40476--40481
[]\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
[584] [585] [586] [587]
Underfull \hbox (badness 10000) in paragraph at lines 40764--40768
[]\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
[588]
Underfull \hbox (badness 1584) in paragraph at lines 40779--40782
[]\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
[589] [590]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 40917--40917
 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths
), keepNA=TRUE))[] 
[591]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 40998--40998
 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123))  # \TS1/pcr/
m/n/9 `\T1/pcr/m/n/9 A+C\TS1/pcr/m/n/9 ` \T1/pcr/m/n/9 could also be used 
[592] [593]
Underfull \hbox (badness 1082) in paragraph at lines 41143--41146
[]\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
[594]
Underfull \hbox (badness 10000) in paragraph at lines 41170--41172
[][][]\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
[595] [596]
Underfull \hbox (badness 1038) in paragraph at lines 41336--41339
[]\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
[597] [598] [599] [600] [601]
Underfull \hbox (badness 1442) in paragraph at lines 41701--41705
\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 =
[602] [603] [604] [605]
Underfull \hbox (badness 4096) in paragraph at lines 41955--41958
[]\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 ,
[606]
Underfull \hbox (badness 7888) in paragraph at lines 42069--42073
[]\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) >
[607] [608] [609]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 42223--42223
 []            \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1"
, "2"), c("A", "B")))),[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 42225--42225
 []            \T1/pcr/m/n/9 array(list(\TS1/pcr/m/n/9 `\T1/pcr/m/n/9 2\TS1/pcr
/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 42227--42227
 []                 \TS1/pcr/m/n/9 `\T1/pcr/m/n/9 4\TS1/pcr/m/n/9 ` \T1/pcr/m/n
/9 = NULL, \TS1/pcr/m/n/9 `\T1/pcr/m/n/9 5\TS1/pcr/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 42240--42242
[]\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
[610]
Underfull \hbox (badness 10000) in paragraph at lines 42320--42323
[][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [
][]$https : / / developer .
[611] [612]
Underfull \hbox (badness 3872) in paragraph at lines 42438--42441
[]\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call
-backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer .
[613]
Underfull \hbox (badness 5475) in paragraph at lines 42504--42508
[][][]\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 \ [][]$\T1/pcr/m/n/10 https : / /
[614] [615] [616] [617] [618] [619]
Underfull \hbox (badness 1655) in paragraph at lines 42927--42934
\T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[]
\T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1
/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ',
Underfull \hbox (badness 2253) in paragraph at lines 42935--42940
[]\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se
e the ex-am-ples for typ-i-cal cases. It may
Underfull \hbox (badness 1655) in paragraph at lines 42935--42940
\T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , 
some-thing like `[]\T1/pcr/m/n/10 "2020a"[]\T1/ptm/m/n/10 '. (It does on sys-te
ms us-ing
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[]\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-
turns the time-zone names known to the cur-rently se-
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\T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t
he file sys-tem varies,
[620]
Underfull \hbox (badness 1082) in paragraph at lines 42995--43007
[]\T1/ptm/m/n/10 is used by de-fault: file `\T1/pcr/m/n/10 VERSION\T1/ptm/m/n/1
0 ' in that di-rec-tory states the ver-sion. That op-tion is
[621]
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\T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de
r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 /
usr/local/etc\T1/ptm/m/n/10 ' or
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[]\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym
-link tar-get name of
Underfull \hbox (badness 3460) in paragraph at lines 43143--43146
[][][]$\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 /
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[][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h
tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol-
[622]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 43156--43156
 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET",
 "Eire", ..., but[] 
[623] [624] [625] [626]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 43499--43499
 []\T1/pcr/m/n/9 trace(pt, tracer = quote(cat(sprintf("tracing pt(*, ncp = %.15
g)\n", ncp))),[] 
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 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL)  ##--> showing the ncp
 root finding:[] 
[627]
Underfull \vbox (badness 10000) has occurred while \output is active [628]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 43602--43602
 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
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 []                                           \T1/pcr/m/n/10 getOption("deparse
.max.lines", -1L)))[] 
[629] [630] [631] [632]
Underfull \hbox (badness 6542) in paragraph at lines 43878--43880
[]\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
[633]
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 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[
 \t\r\n]") 
[634]
Underfull \hbox (badness 1708) in paragraph at lines 44065--44073
[]\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 44065--44073
\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
[635]
Underfull \hbox (badness 4859) in paragraph at lines 44105--44110
[][][]\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;
[636]
Underfull \hbox (badness 3895) in paragraph at lines 44167--44179
[]\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 44167--44179
\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 ,
[637] [638] [639] [640] [641]
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 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp
ression(1+x))[] 
[642] [643] [644] [645] [646] [647]
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 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local
es and fonts[] 
[648]
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 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little-
endian platforms[] 
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[][][]\T1/pcr/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.acc
ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.append[][][][]\T1/ptm/m/n
/10 , [][][]\T1/pcr/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/
10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.exists[][][][]
\T1/ptm/m/n/10 ,
[649]
Underfull \hbox (badness 3861) in paragraph at lines 45043--45048
[][][]\T1/pcr/m/n/10 dir.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 di
r.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 normalizePath[][][][]\T1/
ptm/m/n/10 , [][][]\T1/pcr/m/n/10 path.expand[][][][]\T1/ptm/m/n/10 , [][][]\T1
/pcr/m/n/10 pipe[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Sys.glob[][][][]\
T1/ptm/m/n/10 ,
[650]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 45136--45136
 []\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[] 
[651]
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[]\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 ),
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[]\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
[652] [653] [654]
Underfull \hbox (badness 3668) in paragraph at lines 45432--45434
[]\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di-
ately, even if
[655]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 45538--45538
 []      \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes
sages:\n"),[] 
[656] [657]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 45613--45613
 []\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 45621--45621
 []\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 ...[] 
[658]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 45715--45715
 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w
eek, yr}), ... :[] 
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 []\T1/pcr/m/n/9 dt2df <- function(dt, dName = deparse(substitute(dt)), strings
AsFactors = FALSE) {[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 45720--45720
 []    \T1/pcr/m/n/9 DF <- as.data.frame(unclass(as.POSIXlt( dt )), stringsAsFa
ctors=stringsAsFactors)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 45727--45727
 []\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}[] 
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 []\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[] 
[659]
Underfull \hbox (badness 10000) in paragraph at lines 45791--45796
[]\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 45791--45796
[]\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
[660] [661]
Underfull \hbox (badness 2818) in paragraph at lines 45887--45893
[]\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
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 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is
 at least one:[] 
[662] [663] [664] [665] [666] [667] [668]
Underfull \hbox (badness 2846) in paragraph at lines 46381--46385
[]\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
[669]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 46421--46421
 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char
acter vector[] 
Underfull \hbox (badness 3209) in paragraph at lines 46442--46446
[]\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
[670]) (./compiler-pkg.tex
Chapter 2.
[671]
Underfull \hbox (badness 2884) in paragraph at lines 106--120
[]\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 106--120
\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
[672] [673] [674]) (./datasets-pkg.tex
Chapter 3.
[675] [676] [677] [678] [679]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 301--301
 []  \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang
e", cex = 1.2,[] 
[680]
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 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi
ven = FALSE)[] 
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[682] [683] [684]
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 []           \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t
race = TRUE)[] 
[685]
Underfull \hbox (badness 4779) in paragraph at lines 704--707
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[686] [687]
Underfull \hbox (badness 4779) in paragraph at lines 837--840
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[688] [689] [690]
Underfull \hbox (badness 1097) in paragraph at lines 1037--1041
[]\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.
[691]
Underfull \hbox (badness 4779) in paragraph at lines 1152--1155
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[692] [693] [694] [695] [696]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1464--1464
 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption
 time (sec)")[] 
[697] [698]
Underfull \hbox (badness 10000) in paragraph at lines 1549--1552
[]\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 1549--1552
[]\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
[699] [700] [701]
Underfull \hbox (badness 4779) in paragraph at lines 1738--1741
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[702]
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 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil
y = binomial())[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1840--1840
 []  \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum),
 data = infert)[] 
[703] [704]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1956--1956
 []                                        \T1/pcr/m/n/9 sub(" W.",".Width", dn
i3[[2]])))),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1957--1957
 []    \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d
ni3[[3]]))))[] 
[705] [706] [707] [708]
Underfull \hbox (badness 4779) in paragraph at lines 2160--2163
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[709] [710] [711]
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[712] [713] [714] [715] [716]
Underfull \hbox (badness 4779) in paragraph at lines 2725--2728
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[717]
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[718]
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[720]
Overfull \vbox (12.25539pt too high) has occurred while \output is active
[721] [722]
Overfull \vbox (17.12102pt too high) has occurred while \output is active
[723]
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 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 
1.2, pch = ".")[] 
[724] [725] [726] [727] [728] [729] [730]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3611--3611
 []          \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t
he monthly one:[] 
[731] [732]
Underfull \hbox (badness 4779) in paragraph at lines 3759--3762
[]\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr
oupedData", "groupedData",
[733]
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[734]
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[735]
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 []       \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of
 supplement")[] 
Underfull \hbox (badness 10000) in paragraph at lines 4006--4008
[]\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 4006--4008
\T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma
n / sitephotos /
[736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747]
[748] [749]) (./grDevices-pkg.tex [750]
Chapter 4.
[751] [752] [753] [754]
Underfull \hbox (badness 4752) in paragraph at lines 298--303
[]\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
[755] [756] [757] [758]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 519--519
 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d
.pdf",[] 
[759] [760] [761] [762] [763] [764] [765] [766] [767] [768]
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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))[] 
[772] [773] [774]
Underfull \hbox (badness 3302) in paragraph at lines 1624--1628
[]\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")
[775] [776] [777] [778] [779]
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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
[780]
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 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res 
= 72,[] 
[781]
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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-
Underfull \hbox (badness 2057) in paragraph at lines 2038--2048
[]\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 ,
[782]
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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/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/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
Underfull \hbox (badness 1221) in paragraph at lines 2447--2457
[]\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
[788]
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 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r"
, yaxs = "r") {[] 
[789] [790]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 2666--2666
 []\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)[] 
[791] [792] [793] [794]
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[796] [797] [798] [799]
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 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized
 = FALSE)[] 
[800]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3357--3357
 []\T1/pcr/m/n/9 zapsmall(luv <- convertColor(cols, from = "sRGB", to = "Luv", 
scale.in = 255))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3358--3358
 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv",  to = hexcolor, scale.
out = NULL))[] 
[801] [802] [803]
Underfull \hbox (badness 10000) in paragraph at lines 3516--3522
[]\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b
ased on the inter-quartile range
[804]
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 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl
e = FALSE)[] 
[805]
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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 = 1:8, ylab =
 "", main=main)[] 
[806]
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 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE,
 fixup = TRUE) 
[807]
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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 ,
[808]
Underfull \hbox (badness 2189) in paragraph at lines 3848--3853
[]\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,
Underfull \hbox (badness 10000) in paragraph at lines 3886--3890
\T1/pcr/m/n/10 wikipedia . org / w / index . php ? title = HCL _ color _ space 
& oldid = 883465135$[][]\T1/ptm/m/n/10 .
[809]
Underfull \vbox (badness 10000) has occurred while \output is active [810]
Underfull \hbox (badness 5260) in paragraph at lines 4016--4019
[]\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
[811] [812] [813] [814] [815]
Underfull \hbox (badness 5939) in paragraph at lines 4349--4354
[]\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 ,
[816] [817] [818] [819] [820] [821] [822] [823]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 4869--4869
 []     \T1/pcr/m/n/10 compression = c("none", "rle", "lzw", "jpeg", "zip", "lz
w+p", "zip+p"),[] 
[824] [825]
Underfull \hbox (badness 1348) in paragraph at lines 5074--5077
[]\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
[826]
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 []\T1/pcr/m/n/9 ## Not run: dev.print(png, file = "myplot.png", width = 1024, 
height = 768)[] 
Underfull \hbox (badness 7522) in paragraph at lines 5139--5145
[]\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE []\T1/ptm/m/n/10
 give a []\T1/pcr/m/n/10 printf []\T1/ptm/m/n/10 for-mat such as
[827]
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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"
[828]
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[]\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East 
Asian lan-guages -- see
[829] [830] [831]
Underfull \hbox (badness 7344) in paragraph at lines 5494--5496
[]\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
Underfull \hbox (badness 7397) in paragraph at lines 5505--5509
[][][]\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
[832] [833]
Underfull \hbox (badness 1552) in paragraph at lines 5632--5641
[]\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 
,
Underfull \hbox (badness 10000) in paragraph at lines 5632--5641
[]\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 ,
Underfull \hbox (badness 10000) in paragraph at lines 5632--5641
[]\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
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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
[834]
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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 /
[835] [836]
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 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r
eg-tests-1c.R[] 
[837]
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 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100
, ...)[] 
[838] [839]
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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
[840] [841] [842] [843] [844]
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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
[845] [846] [847] [848] [849] [850]
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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,[] 
[851] [852] [853] [854]
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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
[855]
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 []\T1/pcr/m/n/9 windows()  # make sure we have the right device type (availabl
e on Windows only)[] 
[856]
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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)[] 
[857]
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[]\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used
. One of
[858]
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[]\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ
K lan-guages and
[859]
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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
[860]
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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
[861]
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 []        \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height
 = 6, xpos = 0,[] 
[862] [863]
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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
 ,
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[]\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt
p : / / www . schmidt-[]web-[]berlin . de /
[864] [865] [866]
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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
[867] [868]) (./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 =
[869] [870] [871] [872] [873] [874] [875]
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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
[876] [877]
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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[] 
[878]
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[]\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
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[][][]\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
[879] [880]
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 []\T1/pcr/m/n/9 ## 1e-01 1e+01 1e+03 1e+05 1e+07 1e+09 1e+11 ; since R 4.2.0: 
1e-2 1e0 1e2 .. 1e10[] 
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 []                 \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n
intLog = 5))[] 
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 []        \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = 
NULL, ...)[] 
[881] [882] [883]
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[][][]\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.
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 []        \T1/pcr/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = "
# {passengers}", legend.text = TRUE)[] 
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 []\T1/pcr/m/n/9 (xt <- xtabs(Freq ~ Survived + Class + Sex, d.Titanic, subset 
= Age=="Adult"))[] 
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 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur
vived, *)", color=TRUE)[] 
[884] [885] [886] [887]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1271--1271
 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. 
outside hinges"):[] 
[888] [889] [890]
Underfull \hbox (badness 2503) in paragraph at lines 1433--1442
\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 1468--1470
[]\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt
m/m/n/10 ),
[891] [892]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1542--1542
 []\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 1543--1543
 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main =    "plot(*, col.axi
s=..,main=..)")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1549--1549
 []\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 1550--1550
 []              \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl
ty = 1, outpch = NA)[] 
[893] [894] [895] [896] [897]
Underfull \hbox (badness 10000) in paragraph at lines 1853--1859
[][][]\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 1873--1873
 []\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 1885--1885
 []\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 1901--1901
 []\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 1910--1910
 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = ""
, ylab = "")[] 
[898] [899]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 1995--1995
 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col
umns, 
[900] [901]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 2124--2124
 []\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 2129--2129
 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c(
TRUE, FALSE))[] 
[902] [903]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2303--2303
 []\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 2304--2304
 []         \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T
RUE, log = "",[] 
[904]
Underfull \hbox (badness 1430) in paragraph at lines 2335--2337
[]\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
[905]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 2416--2416
 []               \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO
rRd", rev = TRUE),[] 
Underfull \hbox (badness 1009) in paragraph at lines 2428--2435
\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
[906]
Underfull \hbox (badness 7273) in paragraph at lines 2510--2514
[][][]\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
[907] [908] [909] [910]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2758--2758
 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks:  par(lab = c
(mx, my, 7))[] 
[911]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2795--2795
 []     \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = 
NULL,[] 
[912] [913]
Underfull \hbox (badness 1226) in paragraph at lines 2923--2927
\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
[914]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2976--2976
 []\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 2980--2980
 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a 
suggestion only"[] 
[915]
Underfull \hbox (badness 10000) in paragraph at lines 3042--3045
[][][]\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
Overfull \hbox (15.18042pt too wide) in paragraph at lines 3093--3093
 []\T1/pcr/m/n/9 ## The default fuzz in hist.default()  "kills" this, with a "w
rong" message:[] 
[916] [917] [918]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3257--3257
 []\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 3262--3262
 []        \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel)
, n = 1, plot = plot, ...)[] 
[919] [920]
Underfull \hbox (badness 10000) in paragraph at lines 3404--3409
[]\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 3404--3409
[][][]\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 3404--3409
[][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt
m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is
[921] [922] [923]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3590--3590
 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 
0, horiz = TRUE)[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 3609--3609
 []       \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 3613--3613
 []       \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace =
 FALSE,[] 
[924] [925] [926]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 3798--3798
 []  \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 3799--3799
 []  \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 3803--3803
 []       \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 3813--3813
 []  \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)",[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 3844--3844
 []                      \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj
 = c(0, 0.3))[] 
Underfull \vbox (badness 10000) has occurred while \output is active [927]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 3870--3870
 []\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 3872--3872
 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow
(VADeaths)))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3883--3883
 []\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 3898--3898
 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c
ol = "blue")[] 
Underfull \vbox (badness 10000) has occurred while \output is active [928]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 3906--3906
 []\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 3908--3908
 []\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 3916--3916
 []   \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 3926--3926
 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized"
, "columns."),[] 
[929]
Underfull \hbox (badness 10000) in paragraph at lines 3988--3992
[][][]\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%
[930]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 4100--4100
 []        \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb
ose"))[] 
[931] [932] [933]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 4254--4254
 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le
ngth.out = 100))[] 
[934]
Underfull \hbox (badness 3930) in paragraph at lines 4333--4335
[]\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
[935] [936] [937] [938] [939]
Underfull \hbox (badness 1286) in paragraph at lines 4644--4647
[]\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 4652--4657
[]\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
[940] [941]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4748--4748
 []\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 4753--4753
 []      \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma
=c(2,2,3,2))[] 
[942]
Underfull \hbox (badness 1264) in paragraph at lines 4944--4957
\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 ,
[943] [944] [945] [946]
Underfull \hbox (badness 10000) in paragraph at lines 5210--5213
[947 </builddir/build/BUILD/R-4.2.2/library/graphics/help/figures/mai.pdf>]
Underfull \hbox (badness 10000) in paragraph at lines 5271--5273
[948 </builddir/build/BUILD/R-4.2.2/library/graphics/help/figures/oma.pdf>]
[949] [950]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5517--5517
 []\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 5518--5518
 []  \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t
eachers = 4,[] 
Underfull \vbox (badness 10000) has occurred while \output is active [951]
[952] [953] [954] [955] [956]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5883--5883
 []\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 5884--5884
 []    \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow
3"), border = FALSE)[] 
[957]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5943 \aliasA{plot}{plot.default}{plot}
                                         [958] [959] [960] [961] [962]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6275--6275
 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth)           # numeric v
ector ~ factor[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6281--6281
 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes")  # ext
remely silly[] 
[963] [964]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 6405--6405
 []               \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co
llapse = "\n")),[] 
[965] [966] [967] [968]
Underfull \hbox (badness 10000) in paragraph at lines 6711--6713
[]\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see
[969] [970]
Underfull \hbox (badness 1028) in paragraph at lines 6805--6807
[]\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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[][] 
[971 </builddir/build/BUILD/R-4.2.2/library/graphics/help/figures/pch.pdf>]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 6942--6942
 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b
lue", cex = .6,[] 
[972]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 6973--6973
 []    \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 [973]
[974]
Underfull \hbox (badness 10000) in paragraph at lines 7095--7097
[]\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")[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7128--7128
 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats::
rnorm(n)))))[] 
[975]
Underfull \hbox (badness 2600) in paragraph at lines 7185--7187
[]\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
[976] [977] [978] [979]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7417--7417
 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7
, end = 0.1))[] 
[980] [981] [982] [983] [984] [985]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7804--7804
 []\T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), sp
ace = "Lab")[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7808--7808
 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit
h obs.number):[] 
[986]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7820--7820
 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0
, add = TRUE),[] 
[987] [988] [989] [990] [991]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8169--8169
 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi
us  =  FALSE,[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8172--8172
 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi
us  =  FALSE,[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 8176--8176
 []      \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10
, key.loc =  0:1,[] 
[992] [993] [994]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 8347--8347
 []\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, ...)[] 
[995] [996]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 8452--8452
 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL,
 ...,[] 
[997]
Underfull \hbox (badness 1112) in paragraph at lines 8511--8515
[]\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
[998]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 8571--8571
 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035
, seg.lwd = .8)[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 8586--8586
 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, 
lambda = 2),[] 
[999] [1000]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 8723--8723
 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll
apse = ","),[] 
[1001] [1002]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 8908--8908
 []     \T1/pcr/m/n/9 "Le fran�ais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est fa�ile: 
R�gles, Libert�, Egalit�, Fraternit�...")[] 
[1003]
Underfull \hbox (badness 1215) in paragraph at lines 8936--8938
[]\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
[1004]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni
ts}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9018 \HeaderA{units}{Graphical Units}{units}
                                               [1005]
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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
[1006] [1007]
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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)[] 
[1008]) (./grid-pkg.tex
Chapter 6.
[1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018]
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[]\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments
 to the
[1019] [1020] [1021] [1022] [1023] [1024]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1025] [1026] [1027]
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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")),[] 
[1028] [1029] [1030] [1031]
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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
[1032] [1033] [1034] [1035] [1036] [1037] [1038]
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 []  \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75)
, list(...)))[] 
[1039] [1040] [1041]
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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")[] 
[1042]
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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 ,
[1043]
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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
[1044] [1045] [1046]
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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
[1047] [1048] [1049]
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 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = 
FALSE)[] 
[1050]
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 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs =
 FALSE,[] 
[1051] [1052]
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 []                          \T1/pcr/m/n/9 children=gList(grob(name="child", vp
="vp1::vp2")),[] 
[1053]
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 []           \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp =
 NULL)[] 
[1054] [1055]
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[]\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix;
 see
[1056] [1057] [1058]
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 []  \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1
, "inches"),[] 
[1059] [1060] [1061] [1062] [1063]
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 []                                       \T1/pcr/m/n/9 children=vpList(viewpor
t(name="vp2"))))[] 
[1064] [1065]
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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")))[] 
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[]\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
[1066] [1067]
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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,[] 
[1068] [1069] [1070]
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 []                \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant
i-clockwise")[] 
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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[] 
[1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082]
[1083]
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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
[1084] [1085] [1086] [1087]
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 []                            \T1/pcr/m/n/9 width=unit(1, "inches"), height=un
it(1, "inches")))[] 
[1088] [1089]
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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
[1090] [1091] [1092] [1093] [1094] [1095]
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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
[1096] [1097]
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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
[1098] [1099] [1100]
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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
[1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111]
[1112] [1113] [1114] [1115] [1116] [1117]
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 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r
ecurse=TRUE)[] 
[1118]
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 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip()
, device=TRUE) 
[1119] [1120]
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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
[1121]
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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 ,
[1122] [1123] [1124] [1125] [1126]
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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"))))[] 
[1127]) (./methods-pkg.tex [1128]
Chapter 7.
[1129] [1130]
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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
[1131] [1132] [1133]
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-
[1134] [1135]
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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[] 
[1136]
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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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[1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149]
[1150] [1151] [1152]
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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[] 
[1153] [1154]
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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
[1155] [1156] [1157]
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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 =
[1158] [1159]
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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
[1160] [1161] [1162]
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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
[1163]
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 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin
g(where))[] 
[1164] [1165] [1166]
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 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers
ions visible:[] 
[1167] [1168] [1169] [1170] [1171] [1172] [1173]
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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
[1174] [1175]
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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
[1176]
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[]
[1177] [1178]
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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, ...) {
[1179]
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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
[1180] [1181] [1182] [1183] [1184] [1185]
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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,[] 
[1186]
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 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w
here) 
[1187] [1188] [1189]
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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 ,
[1190] [1191] [1192]
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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
[1193] [1194] [1195] [1196]
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 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate
 inheritance[] 
[1197]
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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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[1199]
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[]\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...)
[1200] [1201]
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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
[1202] [1203] [1204]
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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
[1205] [1206] [1207] [1208] [1209] [1210]
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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
[1211] [1212]
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[]\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
[1213]
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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
[1214] [1215]
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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
[1216]
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[1218] [1219]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.S4}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6981 \aliasA{S4}{S3Part}{S4}
                               [1220]
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 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement 
version of as().[] 
[1221] [1222]
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 []\T1/pcr/m/n/9 fit <- lm(sepal ~ Petal.Length + Petal.Width + Species, data =
 datasets::iris)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7212--7212
 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con
tains = "mlm")[] 
[1223]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Com
plex}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.7237 \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.7239 \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.7240 \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.7242 \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.7243 \aliasA{Summary}{S4groupGeneric}{Summary}
                                                
Underfull \hbox (badness 2050) in paragraph at lines 7304--7308
[]\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
[1224]
Underfull \hbox (badness 6708) in paragraph at lines 7317--7329
[]\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 7317--7329
[]\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 ,
Underfull \hbox (badness 3209) in paragraph at lines 7317--7329
[]\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 ,
[1225] [1226]
Underfull \hbox (badness 1694) in paragraph at lines 7480--7482
[]\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t
ion ob-ject (see
Underfull \hbox (badness 10000) in paragraph at lines 7504--7507
[]\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
[1227]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 7525--7525
 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d
itto w/o "Root"[] 
[1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237] [1238]
[1239] [1240]
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 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact
er(), 
[1241]
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 []      \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class
Def =,[] 
[1242] [1243] [1244] [1245]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 8967--8967
 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col
umn matrices[] 
[1246] [1247] [1248]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9175--9175
 []  \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns),
 "setCount")[] 
[1249] [1250] [1251]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9437--9437
 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo
rmal arguments[] 
[1252] [1253] [1254] [1255]
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 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre
es of freedom[] 
[1256]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9855--9855
 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9866--9866
 []\T1/pcr/m/n/9 ## Not run:   [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1
0] [,11] [,12][] 
[1257] [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266]
Underfull \hbox (badness 10000) in paragraph at lines 10564--10566
[]\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
Underfull \hbox (badness 1852) in paragraph at lines 10572--10576
[]\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.,
Underfull \hbox (badness 1681) in paragraph at lines 10572--10576
[]\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
[1267] [1268] [1269]) (./parallel-pkg.tex [1270]
Chapter 8.
Underfull \hbox (badness 2418) in paragraph at lines 14--16
[]\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
[1271]
Underfull \hbox (badness 4242) in paragraph at lines 97--99
[]\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
[1272] [1273]
Underfull \hbox (badness 1024) in paragraph at lines 214--217
[]\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
[1274]
Underfull \hbox (badness 1320) in paragraph at lines 301--304
[]\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, 
So-laris and Win-dows.
[1275] [1276]
Underfull \hbox (badness 10000) in paragraph at lines 445--447
[]\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
[1277] [1278] [1279] [1280] [1281]
Underfull \hbox (badness 1917) in paragraph at lines 779--788
[]\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
Underfull \hbox (badness 1178) in paragraph at lines 779--788
[]\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
[1282] [1283]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 872--872
 []         \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini
ty.list = NULL)[] 
[1284] [1285] [1286]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1063--1063
 []\T1/pcr/m/n/9 mclapply(list(A, A, A), first, mc.preschedule = FALSE, affinit
y.list = affL)[] 
Overfull \hbox (63.78036pt too wide) in paragraph at lines 1067--1067
 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch
eduled to suitable CPUs[] 
[1287]
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
[1288]
Underfull \hbox (badness 10000) in paragraph at lines 1206--1214
[]\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
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1243--1243
 []\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)[] 
[1289] [1290]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1359--1359
 []                 \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif
(N, 1, 28)))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1373--1373
 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct,  format = 
"%Y-%m-%d")))[] 
[1291]
Underfull \hbox (badness 1577) in paragraph at lines 1402--1405
[]\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
Underfull \hbox (badness 3375) in paragraph at lines 1449--1451
[]\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
[1292] [1293]) (./splines-pkg.tex [1294]
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
[1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 496--496
 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height,  women, bSpl
ine = TRUE))[] 
[1303]
Underfull \hbox (badness 1043) in paragraph at lines 597--599
[]\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
[1304] [1305]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 712--712
 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, 
sparse = TRUE)))[] 
[1306] [1307] [1308]) (./stats-pkg.tex
Chapter 10.
[1309]
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[] 
[1310] [1311] [1312] [1313] [1314]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 445--445
 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea
rson Chi-square[] 
[1315]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 468--468
 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = 
FALSE) 
[1316] [1317] [1318] [1319] [1320] [1321]
Underfull \hbox (badness 1024) in paragraph at lines 887--889
[]\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
[1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1625--1625
 []          \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 1628--1628
 []          \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm 
= TRUE)[] 
[1333] [1334]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 1775--1775
 []                 \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n
a.rm=na.)$y),[] 
[1335]
Overfull \hbox (47.58038pt too wide) in paragraph at lines 1787--1787
 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$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 :[
] 
[1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]
[1347] [1348] [1349]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2805--2805
 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F
ALSE) 
[1350] [1351] [1352] [1353]
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 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co
l = "green")[] 
[1354] [1355] [1356]
Underfull \hbox (badness 10000) in paragraph at lines 3264--3266
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo
geneity of
[1357]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 3313--3313
 []\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)[] 
[1358] [1359] [1360] [1361]
Package amsmath Warning: Foreign command \atopwithdelims;
(amsmath)                \frac or \genfrac should be used instead
(amsmath)                 on input line 3642.
[1362]
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 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = "
log density",[] 
[1363] [1364] [1365] [1366]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3987--3987
 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit
df = 0) 
[1367] [1368] [1369] [1370] [1371]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 4276--4276
 []\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 4277--4277
 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p 
= FALSE)[] 
[1372] [1373] [1374] [1375]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4518--4518
 []\T1/pcr/m/n/9 chisq.test(x, p = p)            #               maybe doubtful
, but is ok![] 
[1376] [1377]
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 []  \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df =
 df, ncp = L)),[] 
[1378] [1379]
Underfull \hbox (badness 3989) in paragraph at lines 4787--4794
[]\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 =
[1380] [1381] [1382] [1383] [1384]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5172--5172
 []\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))[] 
[1385] [1386] [1387]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 5396--5396
 []\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")) 
[1388] [1389] [1390] [1391]
Underfull \hbox (badness 1436) in paragraph at lines 5624--5629
[]\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 5624--5629
\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 5624--5629
\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 ,
[1392] [1393] [1394]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 5827--5827
 []         \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE,
 ...)[] 
[1395] [1396]
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 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center =
 TRUE, 
[1397] [1398] [1399]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 6179--6179
 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter =
 NULL) 
[1400] [1401]
Overfull \hbox (84.78088pt too wide) in paragraph at lines 6287--6287
 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en
v = parent.frame())[] 
[1402] [1403] [1404] [1405]
Underfull \hbox (badness 5954) in paragraph at lines 6550--6552
[]\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn
, see
[1406]
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[]\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 6636--6638
[]\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 6639--6644
\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,
[1407]
Underfull \hbox (badness 7238) in paragraph at lines 6675--6678
[][][]\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 6687--6687
 []\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[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6710--6710
 []\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 6725--6725
 []\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):[] 
[1408]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6740--6740
 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h
oriz = TRUE)[] 
[1409] [1410] [1411]
Underfull \vbox (badness 10000) has occurred while \output is active [1412]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6994--6994
 []                     \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker
n = TRUE))))[] 
[1413] [1414]
Underfull \vbox (badness 10000) has occurred while \output is active [1415]
[1416] [1417] [1418]
Underfull \hbox (badness 10000) in paragraph at lines 7394--7398
[]\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
[1419]
Underfull \hbox (badness 6493) in paragraph at lines 7493--7496
[]\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
[1420] [1421]
Underfull \hbox (badness 10000) in paragraph at lines 7630--7633
[]\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 =
[1422] [1423] [1424] [1425] [1426] [1427]
Underfull \hbox (badness 10000) in paragraph at lines 8042--8047
[]\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 ,
 ...,
[1428] [1429] [1430] [1431] [1432] [1433]
Underfull \hbox (badness 1210) in paragraph at lines 8397--8399
[]\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
[1434] [1435] [1436] [1437] [1438] [1439]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 8860--8860
 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q
uasipoisson())[] 
[1440]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 8905--8905
 []\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 8908--8908
 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit
"), start = c(0,1))[] 
[1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 9488--9488
 []           \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 9489--9489
 []                     \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod
erateS", "VeryS")))[] 
[1449] [1450] [1451]
Underfull \hbox (badness 7291) in paragraph at lines 9668--9670
[]\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test 
of homogeneity of
[1452] [1453] [1454] [1455] [1456] [1457] [1458]
Underfull \hbox (badness 6944) in paragraph at lines 10160--10166
[][][]\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
);
[1459] [1460] [1461]
Underfull \hbox (badness 3758) in paragraph at lines 10374--10377
[]\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
[1462] [1463] [1464] [1465]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 10618--10618
 []    \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL
, ...)[] 
Underfull \hbox (badness 4518) in paragraph at lines 10644--10649
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1466]
Underfull \hbox (badness 4132) in paragraph at lines 10683--10687
[]\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth
od
Underfull \hbox (badness 1112) in paragraph at lines 10737--10743
[]\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-
[1467]
Underfull \hbox (badness 10000) in paragraph at lines 10788--10791
[]\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
[1468] [1469] [1470]
Underfull \hbox (badness 2142) in paragraph at lines 11005--11008
[]\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 ^^@
[1471]
Underfull \hbox (badness 1708) in paragraph at lines 11086--11090
[]\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter-
na-tives are:
[1472]
Underfull \hbox (badness 10000) in paragraph at lines 11128--11134
[][][]\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 11166--11171
[]\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 (=
[1473] [1474]
Underfull \hbox (badness 2635) in paragraph at lines 11299--11302
\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
[1475] [1476] [1477]
Underfull \hbox (badness 1694) in paragraph at lines 11482--11485
[]\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these 
de-fault to
[1478]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11580--11580
 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col
SideColors = cc,[] 
[1479]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 11613--11613
 []            \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 11626--11630
[]\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
[1480] [1481] [1482] [1483] [1484]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 11948--11948
 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4)
, DEV.FUN = nD)[] 
[1485]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11963 \aliasA{hat}{influence.measures}{hat}
                                             
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12023--12023
 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA
LSE),[] 
[1486]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12035--12035
 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE),
 ...)[] 
Underfull \hbox (badness 1062) in paragraph at lines 12088--12093
[]\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 12105--12107
[]\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
[1487] [1488] [1489] [1490]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12360--12360
 []                 \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = 
TRUE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 12361--12361
 []                 \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact
or)),[] 
[1491] [1492] [1493] [1494] [1495] [1496]
Underfull \hbox (badness 10000) in paragraph at lines 12707--12709
[]\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 12730--12732
[]\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
[1497] [1498] [1499] [1500] [1501]
Underfull \hbox (badness 3417) in paragraph at lines 13037--13039
[]\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 13043--13047
[]\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 13043--13047
\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
[1502] [1503] [1504] [1505] [1506] [1507]
Underfull \hbox (badness 1496) in paragraph at lines 13457--13463
[]\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
[1508] [1509] [1510] [1511]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13706--13706
 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c
ol = "gold")[] 
[1512]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13807--13807
 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep
t", "slope"))[] 
[1513]
Underfull \hbox (badness 4518) in paragraph at lines 13855--13860
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1514] [1515] [1516]
Underfull \hbox (badness 10000) in paragraph at lines 14062--14066
[]\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 ,
[1517] [1518] [1519] [1520] [1521]
Underfull \hbox (badness 1163) in paragraph at lines 14402--14410
\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 ,
[1522] [1523]
Underfull \hbox (badness 4518) in paragraph at lines 14522--14527
[]\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co
-ercible by
[1524] [1525] [1526]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 14710--14710
 []\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 14711--14711
 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1527] [1528] [1529] [1530] [1531]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 15054--15054
 []\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 15055--15055
 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = 
FALSE)[] 
[1532]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 15148--15148
 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra
nge(x))) 
[1533] [1534] [1535] [1536] [1537] [1538] [1539]
Underfull \hbox (badness 2726) in paragraph at lines 15557--15560
[]\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 ,
[1540]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 15651--15651
 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i
n R <= 3.5.0[] 
[1541] [1542] [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 16278--16278
 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc
gp, data = esoph) 
[1551] [1552]
Underfull \hbox (badness 1490) in paragraph at lines 16425--16430
\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
[1553]
Underfull \hbox (badness 1648) in paragraph at lines 16491--16493
[]\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,
[1554]
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 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum"
, b = contr.poly))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 16577--16577
 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con
tr.helmert"))[] 
[1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 17134--17134
 []\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[] 
[1564] [1565] [1566]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17366--17366
 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, 
s, prob = 0.4)),[] 
[1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] [1575] [1576]
Underfull \vbox (badness 10000) has occurred while \output is active [1577]
Overfull \hbox (42.18039pt too wide) in paragraph at lines 18088--18088
 []\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 [1578]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 18106--18106
 []\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 18107--18107
 []\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 18111--18111
 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co
nverging on *some*):[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18112--18112
 []\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 18115--18115
 []        \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl
("^NixOS", osVersion)[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 18147--18147
 []              \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21
), th = b[1]))[] 
[1579] [1580] [1581]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 18323--18323
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi
ty), DNase.2)[] 
[1582]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18370--18370
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 18417--18417
 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens
ity), DNase.2 )[] 
[1583] [1584] [1585] [1586]
Overfull \hbox (102.78088pt too wide) in paragraph at lines 18623--18623
 []             \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els
e 2), central = FALSE)[] 
[1587] [1588] [1589] [1590] [1591]
Underfull \hbox (badness 1248) in paragraph at lines 18938--18941
[]\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 18951--18955
[]\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 18959--18963
\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
[1592]
Underfull \hbox (badness 2042) in paragraph at lines 19017--19019
[]\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
[1593]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 19123--19123
 []      \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no
t* at boundary[] 
[1594]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19166--19166
 []     \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", 
axes = FALSE)[] 
Overfull \hbox (123.1803pt too wide) in paragraph at lines 19184--19184
 []\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 19187--19187
 []\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 19207--19207
 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max
(interval), 
[1595]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 19210--19210
 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max
(interval),[] 
Underfull \hbox (badness 2564) in paragraph at lines 19245--19256
[]\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 19245--19256
\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
[1596]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19308--19308
 []\T1/pcr/m/n/9 f  <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 
1)), 10), 10)[] 
[1597] [1598] [1599]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 19535--19535
 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 
1, lty = 1:6,[] 
[1600] [1601]
Underfull \hbox (badness 1337) in paragraph at lines 19646--19649
[]\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
[1602] [1603] [1604] [1605] [1606]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 19965--19965
 []      \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 
1.5),[] 
[1607] [1608]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 20053--20053
 []       \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 20055--20055
 []              \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else 
points,[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 20057--20057
 []     \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact
ive(),[] 
[1609]
Underfull \hbox (badness 10000) in paragraph at lines 20117--20123
\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 20117--20123
\T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp
Underfull \hbox (badness 10000) in paragraph at lines 20125--20131
[]\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 20136--20139
[]\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 <-
[1610] [1611] [1612] [1613] [1614]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 20437--20437
 []                    \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3,
 ...)[] 
Underfull \hbox (badness 1194) in paragraph at lines 20447--20450
[]\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting
 of the con-fi-dence
[1615]
Underfull \hbox (badness 1107) in paragraph at lines 20505--20507
[]\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
[1616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20560--20560
 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange
") # all colors[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 20567--20567
 []\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)[] 
[1617] [1618]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 20661--20661
 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma
r..., oma...)")[] 
[1619] [1620]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 20790--20790
 []    \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE)  # no 
cancellation[] 
[1621]
Underfull \hbox (badness 7740) in paragraph at lines 20853--20855
[]\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
Overfull \hbox (6.78088pt too wide) in paragraph at lines 20901--20901
 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = 
FALSE) 
[1622]
Underfull \hbox (badness 10000) in paragraph at lines 20957--20959
[]\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
[1623]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 20994--20994
 [] \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 20999--20999
 []\T1/pcr/m/n/9 ## poly(<matrix>, df) --- used to fail till July 14 (vive la F
rance!), 2017:[] 
[1624] [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634]
[1635] [1636]
Overfull \hbox (58.38037pt too wide) in paragraph at lines 21854--21854
 []          \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e
xactly equal typically[] 
[1637]
Underfull \hbox (badness 6859) in paragraph at lines 21921--21928
[][][]\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 21932--21938
[]\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 ,
[1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648]
[1649]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 22678--22678
 []         \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign
 = TRUE, ...)[] 
[1650] [1651] [1652] [1653] [1654]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 22962--22962
 []             \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x
)) &&[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 22963--22963
 []                          \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr("
, "p-v"),[] 
[1655] [1656] [1657] [1658] [1659]
Underfull \hbox (badness 1337) in paragraph at lines 23289--23295
[]\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
[1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667]
Underfull \hbox (badness 10000) in paragraph at lines 23848--23850
[]\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 23848--23850
\T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co
ntent / iml / 2017 / 05 / 24 /
Underfull \hbox (badness 10000) in paragraph at lines 23855--23856
[]\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or
g / wiki / Quantile # Estimating _
[1668] [1669]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 23966--23966
 []       \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact"
, "compact"),[] 
[1670]
Underfull \hbox (badness 1028) in paragraph at lines 24024--24027
[]\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
[1671] [1672]
Underfull \hbox (badness 10000) in paragraph at lines 24139--24142
[]\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 24194--24196
[]\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 =
[1673]
Underfull \hbox (badness 7099) in paragraph at lines 24258--24260
[]\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 =
[1674]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24293--24293
 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, 
decreasing=TRUE))[] 
[1675]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24369--24369
 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 
10:1, mean)")[] 
[1676] [1677]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 24486--24486
 []\T1/pcr/m/n/10 #         varying = ___,  # list / matrix / vector (use with 
care)[] 
Overfull \hbox (6.78088pt too wide) in paragraph at lines 24487--24487
 []\T1/pcr/m/n/10 #         v.names = ___,  # vector of variable names in long 
format[] 
Overfull \hbox (24.78088pt too wide) in paragraph at lines 24488--24488
 []\T1/pcr/m/n/10 #         timevar, times, # name / values of constructed time
 variable[] 
Overfull \hbox (12.78088pt too wide) in paragraph at lines 24489--24489
 []\T1/pcr/m/n/10 #         idvar, ids)     # name / values of constructed id v
ariable[] 
[1678] [1679]
Underfull \hbox (badness 10000) in paragraph at lines 24649--24654
[][][]\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 24649--24654
[][][]\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
[1680]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 24660--24660
 []\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 24661--24661
 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev
ar = "time")[] 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 24680--24680
 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide
", v.names = "x")[] 
[1681]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 24784--24784
 []       \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na.
omit", "fail"),[] 
[1682]
Underfull \hbox (badness 1033) in paragraph at lines 24827--24833
\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 24848--24851
[]\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] =
[1683]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 24930--24930
 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi
ans Example")[] 
[1684]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 24959--24959
 []\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 24971--24971
 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1
:5, xlab = NA,[] 
[1685] [1686] [1687] [1688] [1689] [1690] [1691]
Underfull \hbox (badness 6268) in paragraph at lines 25429--25434
[][][]\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 ,
[1692] [1693] [1694] [1695]
Underfull \hbox (badness 1867) in paragraph at lines 25638--25640
[]\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 25653--25657
[]\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 25653--25657
\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 25689--25689
 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165  = "Residual standard error"  printed fr
om summary(lm1)[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 25696--25696
 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole
rance=1e-15))[] 
[1696] [1697] [1698]
Underfull \hbox (badness 2495) in paragraph at lines 25879--25888
[]\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 [][]$\T1/pcr/m/n/10 https : / / en .
[1699] [1700]
Underfull \hbox (badness 2197) in paragraph at lines 26021--26024
[]\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion,
 []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and
[1701]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 26041--26041
 []       \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends
 = FALSE)[] 
Underfull \hbox (badness 1412) in paragraph at lines 26048--26050
[]\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui
red; de-faults to
[1702]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 26135--26135
 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS
S"), smooth(x)))[] 
Overfull \hbox (84.78088pt too wide) in paragraph at lines 26160--26160
 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda 
= NULL, cv = FALSE, 
Overfull \hbox (66.78088pt too wide) in paragraph at lines 26163--26163
 []              \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee
p.stuff = FALSE)[] 
[1703] [1704] [1705]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 26392--26392
 []    \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t
ol) ))[] 
Underfull \hbox (badness 2547) in paragraph at lines 26396--26402
[]\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/
10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in
g only
[1706]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 26442--26442
 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars)  &  smoothi
ng splines")[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 26463--26463
 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # =
= unique(cars$speed)[] 
[1707] [1708] [1709]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 26655--26655
 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na.
fail, 
[1710] [1711] [1712] [1713] [1714] [1715] [1716]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 27035--27035
 []          \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC"
, "hyman"),[] 
[1717] [1718]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 27216--27216
 []\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 27222--27222
 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean))  
for when x has ties")[] 
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 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "monoH.FC")(x), add = TRUE, c
ol = 3, n = 1001)[] 
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 []\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 [1719]
Underfull \hbox (badness 2922) in paragraph at lines 27301--27306
[]\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
[1720]
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 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5.2), xlim
 = c(-.3, 5),[] 
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 []                    \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 27350--27350
 []         \T1/pcr/m/n/9 c(0  ,  1   ), 1, length = 0.08, angle = 25); text(0.
5, 1, quote(1))[] 
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 []  \T1/pcr/m/n/9 y0 <- 1 + 4*exp(-3/4) ; t.5 <- log(2) / exp(-3/4) ; AR2 <- 3
 # (Asym + R0)/2[] 
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 []  \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi
[1]+phi[2],2), phi[1]),[] 
[1721]
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[][][]\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
[1722]
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 []  \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),[] 
[1723]
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 []  \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOrig(xx, Asym = 5, lrc = log
(log(2)))) )[] 
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 []  \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim =
 c(-1/4, 5),[] 
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 []  \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)[] 
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 []       \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5]
 == frac(log(2), e^{phi[2]})}),[] 
[1724]
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[]\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
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 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat
a = Indo.1),[] 
[1725]
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 []  \T1/pcr/m/n/9 legend("topright", c("y1+y2", "y1 = 3.5 * exp(-4*x)", "y2 = 
1.5 * exp(-x)"),[] 
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 []\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)[] 
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 []\T1/pcr/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d
atN, control = list(scaleOffset=1))[] 
Overfull \hbox (123.1803pt too wide) in paragraph at lines 27630--27630
 []           \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1
e-11, nDcentral=TRUE), trace=TRUE)[] 
[1726] [1727]
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 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK
a)*input)) 
[1728]
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[]\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
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 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm
id", phi[4] == "scal")))[] 
[1729]
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[]\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
[1730]
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 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = "
red", lwd=2)[] 
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[]\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
[1731]
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 []\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)[] 
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 []  \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] 
== "scal")))[] 
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 []  \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[] 
[1732]
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[]\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
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 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt),
 digits = 3)[] 
[1733]
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 []       \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS
micmen model")[] 
Underfull \hbox (badness 6493) in paragraph at lines 28142--28147
[]\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
[1734]
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 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
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 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat
a = Chick.6)[] 
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 []\T1/pcr/m/n/9 plot(weight ~ Time, Chick.6, xlim = c(0, 21), main = "SSweibul
l() fit to Chick.6")[] 
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 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f
m1)[["Drop"]]), lty = 3)[] 
[1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745]
[1746] [1747] [1748]
Underfull \hbox (badness 3396) in paragraph at lines 29062--29064
[]\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
[1749] [1750]
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[]\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
[1751] [1752] [1753]
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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
[1754]
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[]\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
[1755]
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 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t
race = FALSE) 
[1756]
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[]\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)
[1757] [1758]
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 []\T1/pcr/m/n/9 symnum(ii, cutpoints =  2*(0:4), symbols = c(".", "-", "+", "$
"), show.max = TRUE)[] 
[1759]
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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
[1760] [1761] [1762]
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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,[] 
[1763]
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 []         \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com
mon",[] 
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[]\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial
 resid-u-als, when
[1764] [1765]
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 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s
pan.smth = 1/4)[] 
[1766]
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 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = 
TRUE,[] 
[1767]
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[]\T1/ptm/m/n/10 If a []\T1/pcr/m/n/10 specials []\T1/ptm/m/n/10 ar-gu-ment was
 given to [][][]\T1/pcr/m/n/10 terms.formula[][][] []\T1/ptm/m/n/10 there is a
[1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776]
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 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE) 
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 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p =
 FALSE)[] 
[1777] [1778] [1779] [1780] [1781]
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 []        \T1/pcr/m/n/10 extendInt = c("no", "yes", "downX", "upX"), check.con
v = FALSE,[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 31229--31229
 []        \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace
 = 0)[] 
[1782] [1783]
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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:[] 
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[1785] [1786]
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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
[1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794]
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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
[1795] [1796] [1797]
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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)[] 
[1798] [1799] [1800]
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 []      \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps
 = getOption("ts.eps"), ...)[] 
[1801]
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 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F
ALSE, 
[1802] [1803]
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 []\T1/pcr/m/n/9 ## The Female:Rejected combination has NA \TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 Freq\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 (and NA prints \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 invisibly\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 as "")[] 
[1804]) (./stats4-pkg.tex
Chapter 11.
[1805] [1806] [1807]
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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[] 
[1809] [1810] [1811] [1812]pdfTeX warning (ext4): destination with the same ide
ntifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.503 ...Package \pkg{stats4}}{show.Rdash.methods}
                                                   [1813] [1814] [1815])
(./tcltk-pkg.tex [1816]
Chapter 12.
[1817] [1818] [1819] [1820]
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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[] 
[1821] [1822] [1823]
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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
[1825] [1826] [1827] [1828] [1829] [1830]
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 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0.
0", "end"))))[] 
[1831] [1832] [1833] [1834] [1835]
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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
[1836]) (./tools-pkg.tex
Chapter 13.
[1837]
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 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for
 new methods.[] 
[1838]
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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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[1839]
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 []\T1/pcr/m/n/9 assertCondition(ff(), "error", "warning") # ok (quietly, catch
ing warning)[] 
[1840]
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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
 ,
[1841]
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 []\T1/pcr/m/n/10 buildVignette(file, dir = ".", weave = TRUE, latex = TRUE, ta
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
[1842] [1843]
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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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[1849] [1850]
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 []\T1/pcr/m/n/10 resaveRdaFiles(paths, compress = c("auto", "gzip", "bzip2", "
xz"),[] 
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 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co
mpress == "none")[] 
[1851] [1852] [1853]
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 []                              \T1/pcr/m/n/10 outputs = FALSE, sources = FALS
E, ...)[] 
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 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU
E, ...)[] 
[1854]
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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
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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
[1855]
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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
[1856] [1857]
Underfull \hbox (badness 10000) in paragraph at lines 1374--1377
[]\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
[1858] [1859]
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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
[1860]
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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
[1861] [1862]
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 []              \T1/pcr/m/n/10 utils::installed.packages(lib.loc, fields = "En
hances"))[] 
Underfull \hbox (badness 7981) in paragraph at lines 1714--1722
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a
 sub-set of
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
Underfull \hbox (badness 1558) in paragraph at lines 1714--1722
\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,
[1863] [1864] [1865]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.GSC}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1926 \aliasA{GSC}{find\_gs\_cmd}{GSC}
                                       pdfTeX warning (ext4): destination with 
the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig
nored
<to be read again> 
                   \relax 
l.1927 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD}
                                                   [1866] [1867] [1868]
[1869]
Underfull \hbox (badness 1142) in paragraph at lines 2196--2202
[]\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
[1870]
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 []    \T1/pcr/m/n/9 r"(\newcommand{\Rlogo}{\if{html}{\figure{Rlogo.svg}{option
s: width=100 alt="R logo"}})",[] 
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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
[1871]
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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
 \T1/ptm/m/n/10 3.x.y to be up-dated to those cur-rently in
[1872]
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 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str
ong", 
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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
 sub-set of
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[]\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests",
Underfull \hbox (badness 1558) in paragraph at lines 2399--2407
\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,
[1873]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2435--2435
 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster"
, "codetools")[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 2468--2468
 []    \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations
 = TRUE)[] 
[1874] [1875] [1876] [1877]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 2752--2752
 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macros", "system.
Rd"),[] 
[1878]
Underfull \hbox (badness 2486) in paragraph at lines 2797--2805
[]\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
[1879] [1880] [1881]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 3009--3009
 []\T1/pcr/m/n/10 checkDocFiles   (package, dir, lib.loc = NULL, chkInternal = 
FALSE) 
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 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = 
FALSE)[] 
[1882] [1883] [1884]
Underfull \hbox (badness 1072) in paragraph at lines 3196--3198
[]\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
[1885] [1886] [1887] [1888] [1889]
Overfull \hbox (72.78088pt too wide) in paragraph at lines 3534--3534
 []             \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro
s", "system.Rd"))[] 
[1890]
Underfull \hbox (badness 5417) in paragraph at lines 3572--3582
[]\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 
,
[1891] [1892] [1893]
Underfull \hbox (badness 4108) in paragraph at lines 3782--3789
[]\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
[1894] [1895]
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 []                      \T1/pcr/m/n/10 types = c("examples", "tests", "vignett
es"),[] 
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 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter
net"))[] 
Underfull \hbox (badness 10000) in paragraph at lines 3902--3904
[]\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run
,
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[]\T1/pcr/m/n/10 testInstalledBasic []\T1/ptm/m/n/10 runs the ba-sic tests, if 
in-stalled. This should be run with
[1896] [1897]
Underfull \hbox (badness 7832) in paragraph at lines 4041--4044
[]\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
[1898] [1899] [1900] [1901]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4276--4276
 []  \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry
run),[] 
[1902] [1903]
Overfull \hbox (96.78088pt too wide) in paragraph at lines 4438--4438
 []\T1/pcr/m/n/10 update_pkg_po(pkgdir, pkg = NULL, version = NULL, mergeOpts =
 "", copyright, bugs) 
Underfull \hbox (badness 3118) in paragraph at lines 4449--4453
[]\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/pcr/m/n/10 m
sgmerge []\T1/ptm/m/n/10 in ad-di-tion to
Underfull \hbox (badness 10000) in paragraph at lines 4453--4456
[]\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
[1904]
Underfull \hbox (badness 6859) in paragraph at lines 4469--4474
[]\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
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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
[1905] [1906] [1907]
Underfull \hbox (badness 10000) in paragraph at lines 4703--4705
[]\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
[1908]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4732--4732
 []               \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F
ALSE,[] 
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 []               \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr
ess = "xz",[] 
Underfull \hbox (badness 3240) in paragraph at lines 4746--4749
[]\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 4750--4760
[]\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 4788--4794
[]\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 4788--4794
\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 ',
[1909]
Underfull \hbox (badness 1571) in paragraph at lines 4816--4820
[]\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 4842--4847
\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
[1910] [1911]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 4984--4984
 []\T1/pcr/m/n/9 xgettext(tmpPkg, asCall=TRUE )[[1]] # default; shows  \TS1/pcr
/m/n/9 ' \T1/pcr/m/n/9 sqrt(as.complex(x)) \TS1/pcr/m/n/9 '[] 
[1912]) (./utils-pkg.tex
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 ',
[1913] [1914] [1915] [1916]
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 []\T1/pcr/m/n/9 find("cor", numeric = TRUE)                     # numbers with
 these names[] 
[1917]
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",
[1918]
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
[1919]
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 []\T1/pcr/m/n/9 # This default is useful only in SDI mode:  it will tile any F
irefox window[] 
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 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("",
 "Firefox"))[] 
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 []         \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No
", "Cancel"))),[] 
[1920] [1921] [1922]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 683--683
 []\T1/pcr/m/n/10 aspell_package_Rd_files(dir, drop = c("\\author", "\\referenc
es"), 
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 []\T1/pcr/m/n/10 aspell_package_R_files(dir, ignore = character(), control = l
ist(),[] 
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 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
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 []\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 692--692
 []                       \T1/pcr/m/n/10 program = NULL, dictionaries = charact
er())[] 
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[]\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 726--732
[]\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-
[1923] [1924] [1925] [1926] [1927]
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 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer =
 NULL, 
[1928]
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[]\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/pcr/m/n/
10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$
\T1/ptm/m/n/10 , in-di-cat-
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\T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f
or-mat-
Underfull \hbox (badness 1092) in paragraph at lines 1115--1123
\T1/ptm/m/n/10 as [][][]\T1/pcr/m/n/10 getOption[][][]("citation.bibtex.max", 1
) []\T1/ptm/m/n/10 which is []\T1/pcr/m/n/10 1 []\T1/ptm/m/n/10 typ-i-cally.
Underfull \hbox (badness 1817) in paragraph at lines 1115--1123
\T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f
ault by
Underfull \hbox (badness 10000) in paragraph at lines 1127--1129
[]\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing
[1929]
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[]\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org 
/ wiki / Digital _ Object _
[1930] [1931]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 1318--1318
 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1932] [1933] [1934] [1935] [1936]
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[]\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b
e quite large the com-
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\T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1
/ptm/m/n/10 never re-turns. Do not re-port that
[1937] [1938]
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 []                                     \T1/pcr/m/n/9 data = infert, family = b
inomial())))[] 
[1939]
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 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b
efore$timestamp,[] 
[1940]
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 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp"
), md5sum=TRUE)[] 
[1941]
Underfull \hbox (badness 2277) in paragraph at lines 2076--2081
[]\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
[1942]
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 []\T1/pcr/m/n/9 cl <- c("alnum", "alpha", "blank", "digit", "graph", "punct", 
"upper", "xdigit")[] 
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 []\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 2119--2119
 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in
 Unicode 13.)[] 
[1943] [1944] [1945]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2267--2267
 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1946]
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 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind =
 NULL, 
[1947] [1948]
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 []                 \T1/pcr/m/n/9 warning("Recommended package \TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 mgcv\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is not installed properly")[] 
[1949]
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 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after =
 NULL,[] 
[1950]
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 []     \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi
nkley [aut]"),[] 
[1951]
Underfull \hbox (badness 1082) in paragraph at lines 2706--2710
[][][]\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;
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard
}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.2711 ... the Clipboard in MS Windows}{clipboard}
                                                   [1952]
Underfull \hbox (badness 1163) in paragraph at lines 2742--2744
[]\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 .
[1953]
Underfull \hbox (badness 10000) in paragraph at lines 2835--2837
[]\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
[1954] [1955] [1956] [1957]
Underfull \hbox (badness 10000) in paragraph at lines 3053--3055
[]\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see
[1958] [1959] [1960] [1961]
Underfull \hbox (badness 1762) in paragraph at lines 3346--3349
[]\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 =
[1962]
Overfull \hbox (63.78036pt too wide) in paragraph at lines 3438--3438
 []\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 3439--3439
 []\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 '[] 
[1963]
Underfull \hbox (badness 2452) in paragraph at lines 3515--3518
[]\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
[1964] [1965] [1966] [1967] [1968] [1969]
Overfull \hbox (74.58035pt too wide) in paragraph at lines 3931--3931
 []  \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf
orm$r_arch, "stats.dll"))[] 
[1970]
Underfull \hbox (badness 4779) in paragraph at lines 4010--4015
[]\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10
 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use
[1971]
Underfull \hbox (badness 1072) in paragraph at lines 4073--4077
[]\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by
 the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the
[1972]
Underfull \hbox (badness 7238) in paragraph at lines 4129--4134
[]\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/
pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1
0 via \T1/ptm/m/n/10 the en-vi-ron-
Underfull \hbox (badness 1337) in paragraph at lines 4129--4134
\T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or 
[]\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / 
/ curl . se / libcurl / c /
Underfull \hbox (badness 1184) in paragraph at lines 4144--4160
\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-
[1973]
Underfull \hbox (badness 4660) in paragraph at lines 4261--4264
\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
[1974]
Underfull \hbox (badness 10000) in paragraph at lines 4285--4287
[]\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
[1975] [1976]
Underfull \hbox (badness 1565) in paragraph at lines 4470--4474
[]\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
[1977]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 4553--4553
 []        \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F
ALSE,[] 
[1978]
Underfull \hbox (badness 1910) in paragraph at lines 4587--4594
\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 4587--4594
\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 4587--4594
[]\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 4587--4594
\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 4594--4601
[]\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)
[1979] [1980] [1981] [1982]
Underfull \hbox (badness 5939) in paragraph at lines 4840--4842
[]\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
[1983] [1984]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4983--4983
 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o
ne is in the[] 
[1985]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for
mat}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.5054 ...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.5054 ...mat Unordered and Ordered Lists}{format}
                                                   [1986] [1987] [1988]
[1989] [1990] [1991] [1992] [1993]
Underfull \hbox (badness 1622) in paragraph at lines 5577--5581
[]\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
[1994] [1995] [1996] [1997] [1998] [1999]
Underfull \hbox (badness 1448) in paragraph at lines 5956--5961
[]\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
[2000] [2001]
Overfull \hbox (96.78088pt too wide) in paragraph at lines 6106--6106
 []\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 6118--6118
 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported 
as tail.matrix()[] 
[2002] [2003]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6251--6251
 []    \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 6252--6252
 []    \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops 
"other" attributes ..[] 
[2004] [2005] [2006]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 6462--6462
 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h
elp(dgamma):[] 
[2007]
Underfull \hbox (badness 10000) in paragraph at lines 6546--6548
[]\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
[2008]
Underfull \hbox (badness 1502) in paragraph at lines 6595--6600
[]\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 6595--6600
\T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are 
listed in file
[2009] [2010]
Underfull \hbox (badness 10000) in paragraph at lines 6768--6777
[]\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de
x,
Underfull \hbox (badness 10000) in paragraph at lines 6768--6777
\T1/ptm/m/n/10 `\T1/pcr/m/n/10 R.home("docs")/html/packages.html\T1/ptm/m/n/10 
', which can be re-made by
[2011]
Underfull \hbox (badness 2150) in paragraph at lines 6832--6835
[]\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion 
to search. See
[2012]
Underfull \hbox (badness 5175) in paragraph at lines 6848--6851
[]\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
[2013]
Underfull \hbox (badness 3118) in paragraph at lines 6971--6973
[]\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
[2014] [2015] [2016]
Underfull \hbox (badness 5091) in paragraph at lines 7146--7148
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 7176--7183
[]\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 7176--7183
\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 7176--7183
\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 7191--7201
\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
[2017]
Underfull \hbox (badness 4441) in paragraph at lines 7234--7237
[]\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 7234--7237
[]\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 7242--7245
[]\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
[2018]
Underfull \hbox (badness 2376) in paragraph at lines 7313--7320
[]\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 7313--7320
\T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there
 are source pack-ages
Underfull \hbox (badness 1342) in paragraph at lines 7313--7320
\T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com
-piled is con-trolled by
Underfull \hbox (badness 1087) in paragraph at lines 7321--7324
[]\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
[2019]
Underfull \hbox (badness 1314) in paragraph at lines 7401--7408
[]\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
[2020]
Underfull \hbox (badness 10000) in paragraph at lines 7481--7486
[][][]\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 7504--7504
 []  \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc
lude/udunits2"))[] 
[2021]
Underfull \hbox (badness 5133) in paragraph at lines 7540--7544
[]\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 7554--7557
[]\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
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7601--7601
 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields
 = "License")[] 
[2022] [2023]
Underfull \hbox (badness 4132) in paragraph at lines 7725--7727
[]\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
[2024] [2025] [2026]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7892--7892
 []\T1/pcr/m/n/9 ls.str(mode = "list")   #- what are the structured objects I h
ave defined?[] 
[2027] [2028] [2029]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 8035--8035
 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F
ALSE) 
Underfull \hbox (badness 10000) in paragraph at lines 8075--8077
[]\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
[2030] [2031]
Underfull \hbox (badness 10000) in paragraph at lines 8180--8182
[]\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 8185--8187
[]\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
[2032] [2033] [2034] [2035]
Underfull \hbox (badness 1859) in paragraph at lines 8413--8416
[]\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br
owser (by
Underfull \hbox (badness 1052) in paragraph at lines 8432--8442
\T1/ptm/m/n/10 ac-cord-ing to ver-sion us-ing \T1/pcr/m/n/10 section \T1/ptm/m/
n/10 el-e-ments with names start-ing with a suit-able pre-fix
[2036]
Underfull \hbox (badness 1655) in paragraph at lines 8507--8510
[]\T1/ptm/m/n/10 A data frame in-her-it-ing from class []\T1/pcr/m/n/10 "news_d
b"[]\T1/ptm/m/n/10 , with [][][]\T1/pcr/m/n/10 attributes[][][] "package" []\T1
/ptm/m/n/10 (and
Overfull \hbox (25.98041pt too wide) in paragraph at lines 8518--8518
 []\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 8526--8526
 []\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 8534--8534
 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st
andardize a bit more[] 
[2037] [2038]
Underfull \hbox (badness 1917) in paragraph at lines 8621--8623
[]\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 ,
[2039] [2040] [2041] [2042]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 8893--8893
 []            \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica
tion", "Built"),[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 8894--8894
 []            \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 8895--8895
 []            \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f
ields=date.fields))[] 
[2043]
Underfull \hbox (badness 10000) in paragraph at lines 8923--8925
[]\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 8937--8939
[]\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 8945--8950
[]\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,
[2044]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8991--8991
 []          \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 8992--8992
 []                                   \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[] 
[2045] [2046]
Underfull \hbox (badness 10000) in paragraph at lines 9121--9126
[]\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 9128--9131
[]\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
[2047]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 9244--9244
 []       \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme
nt"),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 9245--9245
 []       \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", 
">"),[] 
[2048] [2049] [2050]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 9418--9418
 []         \T1/pcr/m/n/9 "S original, <http://statwww.epfl.ch/davison/BMA/libr
ary.html>"),[] 
[2051]
Underfull \hbox (badness 1789) in paragraph at lines 9551--9553
[]\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
[2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060]
Underfull \hbox (badness 5203) in paragraph at lines 10124--10127
[]\T1/ptm/m/n/10 Valid com-ple-tions af-ter the []\T1/pcr/m/n/10 $ []\T1/ptm/m/
n/10 ex-trac-tor are de-ter-mined by the generic func-tion
[2061] [2062] [2063]
Overfull \hbox (30.78088pt too wide) in paragraph at lines 10374--10374
 []         \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "
no.loss"),[] 
[2064] [2065]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 10535--10535
 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr
anspose = TRUE)[] 
[2066] [2067] [2068]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 10716--10716
 []\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[] 
[2069]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 10802--10802
 []           \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss",
 "no.loss"),[] 
Overfull \hbox (0.78088pt too wide) in paragraph at lines 10805--10805
 []           \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)[] 
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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
[2071] [2072] [2073] [2074]
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 []\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"))[] 
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[]\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are
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\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 11169--11174
[]\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
[2075] [2076] [2077] [2078]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 11402--11402
 []        \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c
(1, 0))) 
[2079] [2080] [2081] [2082]
Underfull \hbox (badness 10000) in paragraph at lines 11663--11667
\T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral
s & oldid = 78252134$[][]\T1/ptm/m/n/10 .
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 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:6))) # + NA with a warni
ng for "IIIIII"[] 
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 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in  
{1,2,..,3899} :[] 
[2083] [2084]
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 []\T1/pcr/m/n/10 4. |     \-base:::tryCatchOne(expr, names, parentenv, handler
s[[1L]])[] 
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 []\T1/pcr/m/n/10 5. |       \-base:::doTryCatch(return(expr), name, parentenv,
 handler)[] 
[2085] [2086]
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 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold
 = 0) 
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[]\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-
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\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
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 []\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 '[] 
[2089]
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 []            \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news",
 "Rfunctions",[] 
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 []                         \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"),[] 
[2090]
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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
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 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes","
Rfunctions"))[] 
[2091]
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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
[2092]
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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 /
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 []             \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F
ALSE, ...)[] 
[2093] [2094] [2095]
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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
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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
[2096] [2097]
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 []                 \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa
rent")[] 
[2098]
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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
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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
[2099]
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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
[2100] [2101] [2102] [2103]
Underfull \hbox (badness 1888) in paragraph at lines 13188--13191
[]\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the plat-form \T1/phv/m/n/10
 R \T1/ptm/m/n/10 was built un-der. Where
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[]\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in
g
[2104]
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 []\T1/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at 
end of report[] 
[2105]
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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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 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf
fix)) 
[2106] [2107] [2108]
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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
[2109]
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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-
[2110] [2111] [2112]
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 []                       \T1/pcr/m/n/10 format(x, trim = TRUE, drop0trailing =
 TRUE, ...))[] 
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[]\T1/ptm/m/n/10 logical; if []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault),
 [][][]\T1/pcr/m/n/10 deparse[][][](control = <S>) []\T1/ptm/m/n/10 will not ha
ve
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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;
[2113]
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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[] 
[2114]
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 []\T1/pcr/m/n/9 ## Truncation behavior (<-> correct width measurement) for "lo
ng" non-ASCII:[] 
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 []\T1/pcr/m/n/9 ## nchar.max: 1st line needs an increase of  2  in order to se
e  1  (in UTF-8!):[] 
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 # "1 is 1" here[] 
[2115] [2116] [2117]
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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
[2118]
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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-
[2119]
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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$"[]\T1/ptm/m/n/10 ) and
[2120] [2121]
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\T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/
n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on
 some plat-forms),
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\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --
exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n
/10 ' (and sim-i-lar) and on Win-dows
[2122]
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[]\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p
cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able
[2123]
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[]\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t
o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment 
vari-able
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[][][]$\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 .
Underfull \hbox (badness 10000) in paragraph at lines 14574--14577
\T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht
ml # tag _ 20 _ 92 _
[2124] [2125] [2126]
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 []             \T1/pcr/m/n/10 numerals = c("allow.loss", "warn.loss", "no.loss
"), ...)[] 
[2127] [2128] [2129] [2130] [2131] [2132]
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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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[]\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
[2133]
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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 ,
Underfull \hbox (badness 10000) in paragraph at lines 15243--15248
[]\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
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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
[2134]
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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 ,
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 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/
csb/ch3a.txt") 
[2135] [2136] [2137]
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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[][][](<basename>,
[2138]
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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:[]
 
[2139]
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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)))[] 
[2140] [2141]
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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
[2142]
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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.
[2143] [2144]
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 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep =
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[2145]
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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 =
[2146] [2147] [2148]) [2149] [2150] (./KernSmooth-pkg.tex
Chapter 15.
[2151]
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 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat
e = TRUE) 
[2152] [2153] [2154] [2155] [2156]
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 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun
 = 0.05, 
[2157] [2158] [2159] [2160]) (./MASS-pkg.tex
Chapter 16.
[2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171]
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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))[] 
[2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182]
[2183] [2184] [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193]
[2194]
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 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", 
"F"),[] 
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 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", 
"F"),[] 
[2195] [2196] [2197] [2198]
Underfull \hbox (badness 6559) in paragraph at lines 2701--2704
[]\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
[2199] [2200] [2201]
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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 ,
[2202] [2203]
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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
[2204] [2205] [2206]
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 []            \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL
SE, ...)[] 
[2207]
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 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist =
 "exponential")[] 
[2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218]
[2219]
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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
[2220] [2221] [2222] [2223] [2224] [2225] [2226]
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 []        \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n",
 ...)[] 
[2227] [2228] [2229]
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 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model 
= FALSE, 
[2230] [2231] [2232] [2233] [2234] [2235] [2236] [2237] [2238] [2239] [2240]
[2241] [2242] [2243]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 5930--5930
 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP
ACK = FALSE) 
[2244]
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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") 
[2245] [2246]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.npk}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.6151 ...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.6151 ...sical N, P, K Factorial Experiment}{npk}
                                                   [2247] [2248] [2249]
[2250] [2251] [2252]
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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)))[] 
[2253]
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 []     \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr
ellis"))[] 
[2254] [2255] [2256] [2257] [2258] [2259]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 7098--7098
 []\T1/pcr/m/n/9 nlmod <- nls(y ~  Const + A * exp(B * x), start=list(Const=100
, A=10, B=1))[] 
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 []     \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c
auchit"))[] 
[2260]
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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 ) =
[2261]
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 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da
ta = housing)[] 
[2262] [2263]
Underfull \hbox (badness 1389) in paragraph at lines 7372--7375
[]\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,
[2264] [2265]
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 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam
p = "exact")[] 
[2266]
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 []        \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC
V"), ...)[] 
[2267] [2268] [2269] [2270] [2271] [2272]
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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
[2273] [2274]
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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
[2275] [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] [2284] [2285]
[2286] [2287] [2288] [2289] [2290] [2291] [2292] [2293] [2294]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 9529--9529
 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS
E, ...)[] 
[2295]
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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),
[2296]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 9738--9738
 []\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$double
.eps^0.25,[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 9743--9743
 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub
le.eps^0.25)[] 
[2297] [2298] [2299] [2300] [2301] [2302] [2303] [2304] [2305] [2306] [2307]
[2308] [2309]) (./Matrix-pkg.tex [2310]
Chapter 17.
Underfull \hbox (badness 10000) in paragraph at lines 35--38
[]\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
[2311]
Underfull \hbox (badness 1769) in paragraph at lines 89--92
[]\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
[2312]
Underfull \hbox (badness 2229) in paragraph at lines 153--156
[]\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
Underfull \hbox (badness 1147) in paragraph at lines 153--156
\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
[2313]
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[]\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing
Underfull \hbox (badness 10000) in paragraph at lines 262--264
[]\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
[2314] [2315]
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 []   \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym
metry property[] 
[2316]
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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)[] 
[2317]
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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)],[] 
[2318]
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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:[] 
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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}"}.[] 
[2319]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 662--662
 []        \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)]),[] 
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 []\T1/pcr/m/n/9 l12 <- replicate(12, matrix(rpois(16, lambda = 6.4), 4,4), sim
plify=FALSE)[] 
[2320]
Underfull \hbox (badness 1874) in paragraph at lines 737--740
[]\T1/ptm/m/n/10 The orig-i-nal LA-PACK source code, in-clud-ing doc-u-men-ta-t
ion; [][]$\T1/pcr/m/n/10 https : / / netlib . org /
[2321] [2322]
Underfull \hbox (badness 1107) in paragraph at lines 860--865
\T1/ptm/m/n/10 sity'' of []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/
10 y[]\T1/ptm/m/n/10 , see e.g., the \T1/phv/m/n/10 R \T1/ptm/m/n/10 code in []
\T1/pcr/m/n/10 selectMethod(cbind2,
Underfull \hbox (badness 10000) in paragraph at lines 903--908
[]\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:
[2323]
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 []\T1/pcr/m/n/10 ##   solve(a, b, system = c("A","LDLt","LD","DLt","L","Lt","D
","P","Pt"), ...)[] 
[2324]
Underfull \hbox (badness 3612) in paragraph at lines 1054--1057
[]\T1/pcr/m/n/10 signature(from = "CHMfactor", to = "pMatrix") []\T1/ptm/m/n/10
 re-turns the per-mu-ta-tion
[2325]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cho
l}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1154 ...- 'Matrix' S4 Generic and Methods}{chol}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.chol.1}) has been already used, duplic
ate ignored
<to be read again> 
                   \relax 
l.1154 ...- 'Matrix' S4 Generic and Methods}{chol}
                                                   [2326] [2327]
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 []\T1/pcr/m/n/9 ## --> see Cholesky() and its examples, for the pivot structur
e & factorization[] 
[2328]
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 []\T1/pcr/m/n/10 Cholesky(A, perm = TRUE, LDL = !super, super = FALSE, Imult =
 0, ...) 
[2329]
Underfull \hbox (badness 2277) in paragraph at lines 1424--1427
[]\T1/ptm/m/n/10 This is a generic func-tion with spe-cial meth-ods for dif-fer
-ent types of ma-tri-ces. Use
[2330]
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 []\T1/pcr/m/n/9 ## hence, the identical() check *should* work, but fails on so
me GOTOblas:[] 
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 []\T1/pcr/m/n/9 dq <- function(ch) paste(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/p
cr/m/n/9 '\T1/pcr/m/n/9 ,ch,\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/pcr/m/n/9 '\T1/
pcr/m/n/9 , sep="") ## dQuote(<UTF-8>) gives bad plots[] 
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 []\T1/pcr/m/n/9 (opts <- expand.grid(perm = c(TRUE,FALSE), LDL = c(TRUE,FALSE)
, super = c(FALSE,TRUE)))[] 
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 []\T1/pcr/m/n/9 str(re <- lapply(rr, expand), max.level=2) ## each has a \TS1/
pcr/m/n/9 '\T1/pcr/m/n/9 P\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and a \TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 L\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 matrix[] 
[2331]
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[]\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 
new("Cholesky", ...) []\T1/ptm/m/n/10 or
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[]\T1/pcr/m/n/10 new("BunchKaufman", ...)[]\T1/ptm/m/n/10 , etc, or rather by c
alls of the form [][][]\T1/pcr/m/n/10 chol[][][](pm) []\T1/ptm/m/n/10 or
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[]\T1/ptm/m/n/10 Both these fac-tor-iza-tions can \T1/ptm/m/it/10 di-rectly \T1
/ptm/m/n/10 be treated as (tri-an-gu-lar) ma-tri-ces, as they ex-tend
[2332]
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\T1/ptm/m/n/10 ply an $\OML/cmm/m/it/10 n \OMS/cmsy/m/n/10 ^^B \OML/cmm/m/it/10
 n$ \T1/ptm/m/n/10 nu-meric [][][]\T1/pcr/m/n/10 matrix[][][][]\T1/ptm/m/n/10 .
 Hence, for com-pat-i-bil-ity, the []\T1/pcr/m/n/10 "Cholesky" []\T1/ptm/m/n/10
 and
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colSums})
 has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.1657 ... Row and Column Sums and Means}{colSums}
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ation with the same identifier (name{Rfn.colSums.1}) has been already used, dup
licate ignored
<to be read again> 
                   \relax 
l.1657 ... Row and Column Sums and Means}{colSums}
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ation with the same identifier (name{Rfn.colMeans}) has been already used, dupl
icate ignored
<to be read again> 
                   \relax 
l.1658 \aliasA{colMeans}{colSums}{colMeans}
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ith the same identifier (name{Rfn.rowMeans}) has been already used, duplicate i
gnored
<to be read again> 
                   \relax 
l.1681 \aliasA{rowMeans}{colSums}{rowMeans}
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ith the same identifier (name{Rfn.rowSums}) has been already used, duplicate ig
nored
<to be read again> 
                   \relax 
l.1694 \aliasA{rowSums}{colSums}{rowSums}
                                          [2333pdfTeX warning (ext4): destinati
on with the same identifier (name{Rfn.rowMeans,diagonalMatrix.Rdash.method}) ha
s been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.1733 ## S4 method for signature 'CsparseMatrix'
                                                 pdfTeX warning (ext4): destina
tion with the same identifier (name{Rfn.rowSums,diagonalMatrix.Rdash.method}) h
as been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.1733 ## S4 method for signature 'CsparseMatrix'
                                                 ]
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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
[2334] [2335]
Underfull \hbox (badness 3547) in paragraph at lines 1915--1918
[]\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
[2336] [2337] [2338] [2339] [2340] [2341]
Underfull \hbox (badness 7379) in paragraph at lines 2445--2447
[]\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
[2342] [2343] [2344]
Underfull \hbox (badness 10000) in paragraph at lines 2696--2699
[]\T1/pcr/m/n/10 signature(from = "dgTMatrix", to = "matrix")[]\T1/ptm/m/n/10 ,
 and typ-i-cally co-er-cion
Underfull \hbox (badness 4846) in paragraph at lines 2721--2725
[]\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 2726--2730
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 2733--2736
[]\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 dgCMatrix[][][] []\T1/ptm/m/n/10 or
 the su-per-classes [][][]\T1/pcr/m/n/10 dsparseMatrix[][][] []\T1/ptm/m/n/10 a
nd [][][]\T1/pcr/m/n/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 ;
[2345]
Overfull \hbox (6.78088pt too wide) in paragraph at lines 2780--2780
 []    \T1/pcr/m/n/10 .trDiagonal(n, x = 1,            uplo = "U", unitri=TRUE,
 kind)[] 
Underfull \hbox (badness 2689) in paragraph at lines 2789--2791
[]\T1/ptm/m/n/10 integer spec-i-fy-ing the di-men-sion of the (square) ma-trix.
 If miss-ing,
Underfull \hbox (badness 10000) in paragraph at lines 2793--2798
[]\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 .symDiagonal []\T1/ptm/m/n/10 ([]\T1/pcr/
m/n/10 .trDiagonal[]\T1/ptm/m/n/10 ), the re-sult-ing sparse
Underfull \hbox (badness 3482) in paragraph at lines 2793--2798
[][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 (or [][][]\T1/pcr/m
/n/10 triangularMatrix[][][][]\T1/ptm/m/n/10 ) will have slot []\T1/pcr/m/n/10 
uplo
[2346]
Underfull \hbox (badness 1097) in paragraph at lines 2816--2819
[]\T1/pcr/m/n/10 Diagonal() []\T1/ptm/m/n/10 re-turns an ob-ject of class [][][
]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 or [][][]\T1/pcr/m/n/10 ldiMat
rix[][][] []\T1/ptm/m/n/10 (with ``su-per-class''
Underfull \hbox (badness 1142) in paragraph at lines 2829--2834
[][][]\T1/pcr/m/n/10 CsparseMatrix[][][] []\T1/ptm/m/n/10 (the re-sult-ing clas
s de-pend-ing on []\T1/pcr/m/n/10 shape []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 k
ind[]\T1/ptm/m/n/10 ) rep-re-sen-ta-tion of
[2347]
Underfull \hbox (badness 3646) in paragraph at lines 2925--2928
[]\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 2960--2964
[]\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 2969--2975
[]\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 
: the re-sult is from class
[2348pdfTeX warning (ext4): destination with the same identifier (name{Rfn.coer
ce,diagonalMatrix,nMatrix.Rdash.method}) has been already used, duplicate ignor
ed
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.2975 
       ]
Underfull \hbox (badness 10000) in paragraph at lines 2976--2980
[]\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 2986--2990
[][][]\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
[2349] [2350]
Underfull \hbox (badness 10000) in paragraph at lines 3166--3168
[]\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 :
 this group con-tains
[2351] [2352]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 3312--3312
 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe
rent from the random one[] 
[2353]
Underfull \hbox (badness 2469) in paragraph at lines 3422--3425
[]\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
Underfull \hbox (badness 10000) in paragraph at lines 3445--3450
[]\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 3445--3450
[][][]\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 3451--3460
\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 3451--3460
\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",
[2354] [2355]
Underfull \hbox (badness 10000) in paragraph at lines 3599--3603
[]\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 3599--3603
[]\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 ,
[2356]
Underfull \hbox (badness 1571) in paragraph at lines 3649--3652
[]\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 
: Re-turns (and stores) the
[2357] [2358]
Underfull \hbox (badness 10000) in paragraph at lines 3813--3818
[]\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
Underfull \hbox (badness 6961) in paragraph at lines 3813--3818
\T1/ptm/m/n/10 class []\T1/pcr/m/n/10 "dsparseMatrix" []\T1/ptm/m/n/10 or []\T1
/pcr/m/n/10 "RsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "compMatri
x" []\T1/ptm/m/n/10 by class
Underfull \hbox (badness 1400) in paragraph at lines 3825--3828
[]\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10
 : if []\T1/pcr/m/n/10 uplo ==
[2359]
Underfull \hbox (badness 10000) in paragraph at lines 3896--3898
[]\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 3938--3941
[]\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10
 , or []\T1/pcr/m/n/10 x = "dsyMatrix"
[2360]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3983--3983
 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ 
internally :[] 
[2361]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4116--4116
 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim 
= c(5L, 5L),[] 
[2362]
Underfull \hbox (badness 3635) in paragraph at lines 4179--4183
[]\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 4188--4191
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
[2363]
Underfull \hbox (badness 10000) in paragraph at lines 4193--4197
[]\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n
/10 : the
[2364] [2365pdfTeX warning (ext4): destination with the same identifier (name{R
fn.coerce,dtrMatrix,dgeMatrix.Rdash.method}) has been already used, duplicate i
gnored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.4347 \item[\code{diag}:]
                           Object of class \code{"character"}. Must be]
Underfull \hbox (badness 2065) in paragraph at lines 4378--4382
[]\T1/pcr/m/n/10 signature(a = "dtrMatrix", b = "....")[]\T1/ptm/m/n/10 efficie
ntely use a ``for-ward-solve'' or
[2366] [2367] [2368] [2369]
Overfull \hbox (112.38031pt too wide) in paragraph at lines 4635--4635
 []\T1/pcr/m/n/9 str(jgl009 <- ## https://math.nist.gov/MatrixMarket/data/Harwe
ll-Boeing/counterx/counterx.html[] 
Overfull \hbox (90.78033pt too wide) in paragraph at lines 4642--4642
 [] \T1/pcr/m/n/9 readHB(gzcon(url("https://www.cise.ufl.edu/research/sparse/RB
/Boeing/msc00726.tar.gz"))))[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4646--4646
 []\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 4649--4649
 []\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)[] 
Overfull \hbox (58.38037pt too wide) in paragraph at lines 4659--4659
 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume
nts to sparseMatrix():[] 
[2370] [2371] [2372] [2373]
Underfull \hbox (badness 10000) in paragraph at lines 4937--4942
[]\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 compMatrix[][][][]\T1/ptm/m/n/10 
, and the non-general vir-tual classes: [][][]\T1/pcr/m/n/10 symmetricMatrix[][
][][]\T1/ptm/m/n/10 ,
[2374]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5018--5018
 []\T1/pcr/m/n/9 if(isTRUE(try(require(graph)))) { ## super careful .. for "che
cking reasons" 
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5020--5020
 []  \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 5024--5024
 []  \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE,
 dimnames=dns))[] 
[2375]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5031--5031
 []  \T1/pcr/m/n/9 a. <- sparseMatrix(i= 4:1, j=1:4, dimnames=list(n4,n4), give
C=FALSE) # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] 
[2376] [2377]
Underfull \hbox (badness 4120) in paragraph at lines 5170--5173
[]\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 5188--5188
 []\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 5208--5208
 []\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 5214--5214
 [] \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 5215--5215
 [] \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 5219--5219
 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor
der.col = adjustcolor("skyblue", 1/2))[] 
[2378]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 5227--5227
 []\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 5230--5230
 []   \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi
ly zoom in and out[] 
[2379]
Underfull \hbox (badness 1817) in paragraph at lines 5326--5335
[]\T1/ptm/m/n/10 While ``row-indexing'' (of more than one row \T1/ptm/m/it/10 o
r \T1/ptm/m/n/10 us-ing []\T1/pcr/m/n/10 drop=FALSE[]\T1/ptm/m/n/10 ) stays wit
hin the
Underfull \hbox (badness 10000) in paragraph at lines 5368--5370
[]\T1/pcr/m/n/10 signature(x = "matrix", y = "indMatrix") []\T1/ptm/m/n/10 and 
other sig-na-tures (use
Underfull \hbox (badness 7081) in paragraph at lines 5370--5373
[]\T1/pcr/m/n/10 signature(from = "integer", to = "indMatrix")[]\T1/ptm/m/n/10 
: This en-ables typ-i-cal
Underfull \hbox (badness 4556) in paragraph at lines 5376--5383
[]\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : T
he list must have two
[2380]
Underfull \hbox (badness 3302) in paragraph at lines 5401--5404
[]\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : 
re-turn the kro-necker
[2381] [2382] [2383] [2384]
Overfull \hbox (138.78088pt too wide) in paragraph at lines 5776--5776
 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, tol1 = 8
 * tol, checkDN = TRUE, ...)[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 5782--5782
 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, checkDN 
= TRUE, ...)[] 
[2385]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5841--5841
 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if
 not "formally"[] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 5845--5845
 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g
eneric from base[] 
[2386]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 5937--5937
 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even 
if not "formally"[] 
Overfull \hbox (18.78088pt too wide) in paragraph at lines 5962--5962
 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames 
= FALSE) 
[2387] [2388]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 6042--6042
 []\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 6043--6043
 []          \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 6050--6050
 []  \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di
mnames(Kmd)))[] 
[2389] [2390]
Underfull \hbox (badness 1062) in paragraph at lines 6204--6207
[]\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
Underfull \hbox (badness 6063) in paragraph at lines 6233--6236
[]\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
[2391]
Underfull \hbox (badness 2635) in paragraph at lines 6402--6407
[]\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 6402--6407
\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
[2392]
Underfull \hbox (badness 10000) in paragraph at lines 6410--6413
[]\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.,
Underfull \hbox (badness 10000) in paragraph at lines 6566--6576
[]\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 6566--6576
[][][]\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
[2393]
Underfull \hbox (badness 3179) in paragraph at lines 6648--6651
[]\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
[2394]
Underfull \hbox (badness 10000) in paragraph at lines 6751--6754
[]\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.,
[2395]
Underfull \hbox (badness 10000) in paragraph at lines 6830--6833
[]\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.,
[2396]
Underfull \hbox (badness 1430) in paragraph at lines 6904--6910
\T1/ptm/m/n/10 should be sig-nalled when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is
 sin-gu-lar. When []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar, []\T1/pcr/
m/n/10 lu(x,
[2397]
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[]\T1/pcr/m/n/10 lu() []\T1/ptm/m/n/10 is a generic func-tion with spe-cial met
h-ods for dif-fer-ent types of ma-tri-ces. Use
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 []                                \T1/pcr/m/n/9 # q is a 0-based permutation o
f the columns[] 
[2398] [2399]
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[]\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
,
[2400]
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[]\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)
[2401] [2402]pdfTeX warning (ext4): destination with the same identifier (name{
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<to be read again> 
                   \relax 
l.7358 \aliasA{det}{Matrix-class}{det}
                                       [2403pdfTeX warning (ext4): destination 
with the same identifier (name{Rfn.coerce,Matrix,denseMatrix.Rdash.method}) has
 been already used, duplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.7439 \item[dim]
                  \code{signature(x = "Matrix")}: extract matrix dimensions]
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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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[]\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This 
re-lies on a cor-rect
[2404]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.7532 ...*\%}{matrix-products}{.Rpcent.*.Rpcent.}
                                                  pdfTeX warning (ext4): destin
ation with the same identifier (name{Rfn.crossprod}) has been already used, dup
licate ignored
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                   \relax 
l.7629 ...A{crossprod}{matrix-products}{crossprod}
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ation with the same identifier (name{Rfn.tcrossprod}) has been already used, du
plicate ignored
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                   \relax 
l.7723 ...tcrossprod}{matrix-products}{tcrossprod}
                                                  
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\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
[2405]
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[]\T1/pcr/m/n/10 signature(x = "dgeMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : 
Ma-trix mul-ti-pli-ca-tion;
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[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-tures (use
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[]\T1/pcr/m/n/10 showMethods("%*%", class="dtrMatrix")[]\T1/ptm/m/n/10 ): ma-tr
ix mul-ti-pli-ca-tion. Mul-ti-
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\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
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[]\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and 
other sig-na-
[2406] [2407] [2408]
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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
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[]\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
[2409]
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[]\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 <-
[2410] [2411]
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 []   \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[] 
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[]\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 .
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\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
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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.,
[2413]
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[]\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N
ote that these co-er-cions
[2414]
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[]\T1/ptm/m/n/10 fast sim-
[2415]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.nor
m}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.8626 \HeaderA{norm}{Matrix Norms}{norm}
                                         pdfTeX warning (ext4): destination wit
h the same identifier (name{Rfn.norm.1}) has been already used, duplicate ignor
ed
<to be read again> 
                   \relax 
l.8626 \HeaderA{norm}{Matrix Norms}{norm}
                                          [2416]
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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/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 ,
[2417]
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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
[2418]
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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.,
[2419]
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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.,
[2420] [2421]
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr
op =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop
 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro
p =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr
op =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop 
=
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=
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 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop
 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr
op =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop 
=
[2422]
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop
 =
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p =
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op =
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=
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=
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 =
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop 
=
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[]\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop
 =
[2423]
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[]\T1/pcr/m/n/10 signature(x = "matrix", y = "pMatrix") []\T1/ptm/m/n/10 and ot
her sig-na-tures (use
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[]\T1/pcr/m/n/10 signature(from = "integer", to = "pMatrix")[]\T1/ptm/m/n/10 : 
This is en-ables typ-i-cal
[2424]
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[]\T1/pcr/m/n/10 signature(from = "pMatrix", to = "matrix")[]\T1/ptm/m/n/10 : c
o-er-cion to a tra-di-tional
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[]\T1/pcr/m/n/10 signature(x = "pMatrix", logarithm="logical")[]\T1/ptm/m/n/10 
: Since per-mu-ta-
Underfull \hbox (badness 3229) in paragraph at lines 9354--9358
\T1/ptm/m/n/10 trix; note that []\T1/pcr/m/n/10 solve(P) []\T1/ptm/m/n/10 is id
en-ti-cal to []\T1/pcr/m/n/10 t(P) []\T1/ptm/m/n/10 for per-mu-ta-tion ma-tri-c
es. See
[2425]
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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")),[] 
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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
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\T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro
m
[2426] [2427]pdfTeX warning (ext4): destination with the same identifier (name{
Rfn.qr}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9569 \aliasA{qr}{qr-methods}{qr}
                                   [2428]
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 []\T1/pcr/m/n/9 stopifnot(identical(dimnames(X), dnX))# some versions changed 
X\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s dimnames![] 
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 []\T1/pcr/m/n/9 qxrLA <- qr(m(Xr), LAPACK=TRUE) # => qr.fitted(), qr.resid() n
ot supported[] 
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 []\T1/pcr/m/n/9 ##----- rank-deficient ("singular") case ---------------------
---------------[] 
[2429]
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 []\T1/pcr/m/n/9 (X. <- drop0(Q. %*% R.[, qI], tol=tolE))## just = X, incl. cor
rect colnames[] 
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[]\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 
qr[][][](x, tol,
[2430]
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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
[2431]
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 []\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![] 
[2432]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rco
nd}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9893 ... the Reciprocal Condition Number}{rcond}
                                                   [2433]
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 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not
 have full rank[] 
[2434] [2435] [2436]
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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
[2437] [2438]
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[]\T1/ptm/m/n/10 numeric square Ma-trix (in-her-it-ing from class []\T1/pcr/m/n
/10 "Matrix"[]\T1/ptm/m/n/10 ) or tra-di-tional
[2439]
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 []                           \T1/pcr/m/n/9 z[order(Mod(z), decreasing=TRUE)]})
, tolerance = 1e-13),[] 
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 []\T1/pcr/m/n/9 ## For the faint of heart, we provide Schur() also for traditi
onal matrices:[] 
[2440]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.sol
ve}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.10470 \aliasA{solve}{solve-methods}{solve}
                                            
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 []\T1/pcr/m/n/10 ## solve(a, b, ...) # the two-argument version, almost always
 preferred to 
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 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", "
D", "P", "Pt"), ...)[] 
[2441]
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[]\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 solve []\T1/ptm/m/n/10 meth-ods for a
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[]\T1/ptm/m/n/10 (for all []\T1/pcr/m/n/10 b[]\T1/ptm/m/n/10 ) work via []\T1/p
cr/m/n/10 as(a,
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[]\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 (
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[]\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 (
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\T1/pcr/m/n/10 sparse=FALSE, tol = .Machine$double.eps ) []\T1/ptm/m/n/10 : Che
cks if []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is sym-met-ric,
[2442]
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[]\T1/ptm/m/n/10 All these meth-ods first try Cholmod's
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[]\T1/ptm/m/n/10 all end up call-ing LA-PACK rou-tines
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[]\T1/ptm/m/n/10 works via []\T1/pcr/m/n/10 as(b,
Underfull \hbox (badness 10000) in paragraph at lines 10721--10723
[]\T1/ptm/m/n/10 these meth-ods typ-i-cally use
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[]\T1/ptm/m/n/10 all work via []\T1/pcr/m/n/10 as(a,
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[][][]\T1/pcr/m/n/10 solve[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lu[][][
][]\T1/ptm/m/n/10 , and class doc-u-men-ta-tions [][][]\T1/pcr/m/n/10 CHMfactor
[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 sparseLU[][][][]\T1/ptm/m/n/10 , 
and
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 []\T1/pcr/m/n/9 image(ia0 <- solve(a)) # checker board, dense [but really, a i
s singular!][] 
Overfull \hbox (25.98041pt too wide) in paragraph at lines 10755--10755
 []  \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on
 [FIXME ??] only[] 
[2443]
Underfull \hbox (badness 10000) in paragraph at lines 10776--10779
[]\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,[] 
Underfull \hbox (badness 1648) in paragraph at lines 10804--10806
[]\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 10812--10815
[]\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 10812--10815
[]\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
[2444]
Underfull \hbox (badness 10000) in paragraph at lines 10823--10827
[]\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 10823--10827
[]\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
Underfull \hbox (badness 1668) in paragraph at lines 10838--10843
[][][]\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
[2445]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 10918--10918
 []  \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 10919--10919
 []  \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 10920--10920
 []  \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M)
 == c(0,12),[] 
[2446] [2447]
Overfull \hbox (0.78088pt too wide) in paragraph at lines 11107--11107
 []             \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = 
TRUE,[] 
[2448]
Underfull \hbox (badness 1668) in paragraph at lines 11149--11154
[][][]\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
[2449]
Underfull \hbox (badness 10000) in paragraph at lines 11234--11237
[]\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
Overfull \hbox (4.38043pt too wide) in paragraph at lines 11246--11246
 []\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 11250--11250
 []\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 11251--11251
 []\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 11256--11256
 []\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 11259--11259
 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar
e consistent[] 
[2450]
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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 11283--11283
 []\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 11309--11309
 []\T1/pcr/m/n/9 ## pointers example in converting from other sparse matrix rep
resentations.[] 
Overfull \hbox (47.58038pt too wide) in paragraph at lines 11311--11311
 []   \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 11313--11313
 []  \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims =
 X@dimension)[] 
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Underfull \hbox (badness 6842) in paragraph at lines 11411--11414
[]\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
[2452]
Underfull \hbox (badness 10000) in paragraph at lines 11446--11450
[][][]\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
pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr.Q}) ha
s been already used, duplicate ignored
<to be read again> 
                   \relax 
l.11486 \aliasA{qr.Q}{sparseQR-class}{qr.Q}
                                            [2453] [2454]
Underfull \hbox (badness 10000) in paragraph at lines 11616--11618
[]\T1/pcr/m/n/10 signature(a = "sparseQR", b = "ANY")[]\T1/ptm/m/n/10 : For []\
T1/pcr/m/n/10 solve(a,b)[]\T1/ptm/m/n/10 , sim-ply uses
Overfull \hbox (58.38037pt too wide) in paragraph at lines 11644--11644
 [] \T1/pcr/m/n/9 qc  <- qr.coef  (qrm, y); qc. <- qr.coef  (qrm, y.) # 2nd fai
led in Matrix <= 1.1-0[] 
[2455]
Underfull \hbox (badness 5036) in paragraph at lines 11672--11674
[]\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case
 a
Underfull \hbox (badness 2970) in paragraph at lines 11783--11789
[]\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 11783--11789
\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 ,
[2456]
Underfull \hbox (badness 10000) in paragraph at lines 11834--11837
[]\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/
n/10 co-erces sparse
[2457]
Underfull \hbox (badness 10000) in paragraph at lines 11874--11879
[]\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 11889--11891
[][][]\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(*,
[2458] [2459]
Underfull \hbox (badness 2310) in paragraph at lines 12014--12020
[][][]\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,
[2460]
Underfull \hbox (badness 6188) in paragraph at lines 12105--12107
[]\T1/pcr/m/n/10 signature(from = "ddiMatrix", to = "symmetricMatrix")[]\T1/ptm
/m/n/10 : and many
[2461]
Underfull \hbox (badness 2591) in paragraph at lines 12131--12136
\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
Underfull \hbox (badness 2057) in paragraph at lines 12207--12209
[]\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.,
[2462] [2463]
Underfull \hbox (badness 6641) in paragraph at lines 12294--12297
[]\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 12338--12342
[]\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 12338--12342
\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
[2464] [2465]
Underfull \hbox (badness 7649) in paragraph at lines 12445--12447
[]\T1/ptm/m/n/10 a sparse ma-trix stored in triplet form, i.e., in-her-it-ing f
rom class
[2466] [2467]
Underfull \hbox (badness 10000) in paragraph at lines 12563--12565
[]\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , 
though
[2468]
Underfull \hbox (badness 1668) in paragraph at lines 12692--12695
[][][]\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
[2469]
Underfull \hbox (badness 7362) in paragraph at lines 12743--12745
[]\T1/ptm/m/n/10 any \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject, co-er-ca-ble to a
 sparse ma-trix (i.e., of sub-class of
[2470]
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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 12782--12782
 []\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)[] 
[2471] [2472]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12936--12936
 []   \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C1, nWC, 1/
x))$modulus))[] 
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12941--12941
 []   \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C2, nWC, 1/
x))$modulus))[] 
[2473]
Underfull \hbox (badness 6910) in paragraph at lines 13147--13149
[]\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back
[2474] [2475]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13312--13312
 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero
s" to drop0()[] 
[2476]) (./boot-pkg.tex
Chapter 18.
[2477] [2478] [2479] [2480] [2481] [2482] [2483]
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"), 
[2484]
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-
[2485] [2486] [2487]
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 ,
[2488]
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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[2490] [2491]
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
[2492] [2493] [2494] [2495]
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-
[2496] [2497] [2498] [2499] [2500]
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), 
[2501] [2502] [2503]
Underfull \vbox (badness 10000) has occurred while \output is active [2504]
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),[] 
[2505]
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.
[2506] [2507] [2508]
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
[2509]
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 ,
[2510] [2511]
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
[2512] [2513] [2514] [2515] [2516]
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,[] 
[2517] [2518] [2519]
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 ,
[2520]
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)) 
[2521] [2522] [2523]
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 
[2524] [2525] [2526] [2527] [2528] [2529] [2530]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838
 []             \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q
 = NULL)[] 
[2531] [2532]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977
 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 =
 grav.z0[3])[] 
[2533] [2534] [2535] [2536]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259
 []\T1/pcr/m/n/9 #  To draw the jackknife-after-bootstrap plot for the head siz
e data as in 
[2537] [2538]
Underfull \hbox (badness 10000) in paragraph at lines 4362--4364
[]\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o
f
Underfull \hbox (badness 1430) in paragraph at lines 4371--4375
\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the
r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a
re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to
[2539] [2540] [2541] [2542] [2543] [2544] [2545] [2546] [2547]
Underfull \hbox (badness 3000) in paragraph at lines 4959--4962
[]\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put 
of a call to
[2548] [2549] [2550] [2551]
Underfull \hbox (badness 2293) in paragraph at lines 5238--5241
[]\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the 
boot-strap
Underfull \hbox (badness 1668) in paragraph at lines 5238--5241
\T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl
os-est to
[2552]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317
 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat
a = grav1[, 2])[] 
[2553] [2554] [2555] [2556] [2557] [2558] [2559] [2560]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866
 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c
ity.sp1$spa[1][] 
[2561]
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
[2562]
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
[2563] [2564] [2565] [2566]
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). 
[2567] [2568]
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[] 
[2569] [2570] [2571]
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
[2572] [2573]
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),[] 
[2574] [2575] [2576] [2577] [2578] [2579] [2580] [2581]) (./class-pkg.tex
[2582]
Chapter 19.
[2583] [2584] [2585] [2586] [2587] [2588] [2589] [2590] [2591] [2592] [2593]
[2594] [2595] [2596] [2597] [2598]) (./cluster-pkg.tex
Chapter 20.
[2599] [2600] [2601]
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]))[] 
[2602] [2603]
Underfull \vbox (badness 10000) has occurred while \output is active [2604]
[2605]
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,
 ...)[] 
[2606] [2607]
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)[] 
[2608]
Underfull \hbox (badness 3078) in paragraph at lines 691--694
[]\T1/ptm/m/n/10 Setting this to []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 saves 
mem-ory (and hence time), but dis-ables
[2609] [2610]
Underfull \hbox (badness 2941) in paragraph at lines 791--794
[][][]\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 ,
[2611]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 834--834
 []\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 881--883
[]\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p
le, see
[2612]
Overfull \hbox (24.78088pt too wide) in paragraph at lines 946--946
 []     \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code
=3), ...)[] 
[2613]
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,
[2614] [2615]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1121--1121
 []        \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 1138--1138
 []\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 [2616]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1176--1176
 []\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 1208--1212
[]\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
[2617]
Overfull \hbox (60.78088pt too wide) in paragraph at lines 1284--1284
 []          \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 1290--1290
 []             \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin
t variability."),[] 
[2618] [2619] [2620]
Underfull \hbox (badness 10000) in paragraph at lines 1477--1480
Underfull \hbox (badness 10000) in paragraph at lines 1494--1498
[][][]\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 1518--1518
 []\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 1528--1528
 []  \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i
dent. only points[] 
[2621]
Underfull \hbox (badness 5741) in paragraph at lines 1568--1571
[]\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
[2622]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 1637--1637
 []      \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa
rnType,[] 
[2623]
Underfull \hbox (badness 1552) in paragraph at lines 1686--1688
[]\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 1699--1703
[]\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 1699--1703
\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
[2624]
Underfull \hbox (badness 1540) in paragraph at lines 1775--1783
\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 =
[2625]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 1867--1867
 []\T1/pcr/m/n/9 summary(dfl2 <- daisy(flower, type = list(asymm = c(1, 3), ord
ratio = 7)))[] 
Overfull \hbox (42.78088pt too wide) in paragraph at lines 1886--1886
 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st
and = FALSE, 
[2626] [2627] [2628] [2629] [2630]
Underfull \hbox (badness 10000) in paragraph at lines 2207--2210
Underfull \hbox (badness 3179) in paragraph at lines 2221--2227
[][][]\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.
[2631] [2632]
Underfull \hbox (badness 10000) in paragraph at lines 2379--2382
[][][]\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 ,
[2633]
Underfull \hbox (badness 1292) in paragraph at lines 2447--2450
[]\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
[2634]
Underfull \hbox (badness 6675) in paragraph at lines 2456--2458
[]\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 2479--2482
[][][]\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 ,
[2635] [2636]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 2608--2608
 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES 
= FALSE, ...) 
[2637]
Overfull \hbox (69.18036pt too wide) in paragraph at lines 2655--2655
 []  \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k
 <= k, table(cl.k) >= 2)[] 
[2638]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 2760--2760
 []\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 ):[] 
[2639]
Overfull \hbox (42.78088pt too wide) in paragraph at lines 2839--2839
 []    \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5"
, "faster"),[] 
[2640] [2641] [2642]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 3068--3068
 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro
und (1, 16):[] 
[2643] [2644]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 3171--3171
 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co
l.axis = "red")[] 
[2645] [2646] [2647]
Overfull \hbox (78.78088pt too wide) in paragraph at lines 3367--3367
 []           \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x
$ac, digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3368--3368
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2648]
Underfull \hbox (badness 10000) in paragraph at lines 3435--3438
[]\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m
/n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <-
[2649]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 3485--3485
 []           \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc,
 digits = 2)),[] 
Overfull \hbox (48.78088pt too wide) in paragraph at lines 3486--3486
 []           \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty
 = TRUE, ...)[] 
[2650] [2651] [2652]
Underfull \hbox (badness 10000) in paragraph at lines 3671--3674
[]\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 3671--3674
\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
[2653]
Underfull \hbox (badness 10000) in paragraph at lines 3734--3739
[][][]\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 ,
[2654]
Underfull \hbox (badness 1748) in paragraph at lines 3796--3801
\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 3808--3811
[][][]\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 ,
[2655] [2656] [2657]
Underfull \hbox (badness 10000) in paragraph at lines 3993--3996
[][][]\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 4024--4027
[][][]\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 ,
[2658]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 4077--4077
 []      \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right =
 TRUE, ...)[] 
[2659]
Underfull \hbox (badness 2035) in paragraph at lines 4088--4090
[]\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
[2660] [2661] [2662]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 4281--4281
 []     \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 4283--4283
 []     \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat
 = TRUE, ...)[] 
[2663] [2664]
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[] 
[2665] [2666] [2667] [2668] [2669] [2670] [2671]
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[]\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
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[]\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
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 []\T1/pcr/m/n/9 ## Visualization: Assuming groups are defined as {1:1000}, {10
01:2000}, {2001:3000} 
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 []\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)$id.med[] 
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 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7  clear "outlier"s  or "wrong group" o
bservations:[] 
[2672]
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 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? -
- Robust range:[] 
[2673]) (./codetools-pkg.tex [2674]
Chapter 21.
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 []           \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch
 = FALSE,[] 
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 []           \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = 
!all,[] 
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 []           \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress
Undefined,[] 
[2675]
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[]\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage
Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply
[2676]
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 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e
nterInternal,[] 
[2677] [2678] [2679]) (./foreign-pkg.tex [2680]
Chapter 22.
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[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
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\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\T1/p
cr/m/n/10 https : / / support .
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\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
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\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2681]
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[]\T1/ptm/m/n/10 a char-ac-ter string with the name of the ARFF file to read fr
om, or a
[2682] [2683]
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[]\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 ,
[2684]
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 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates =
 FALSE, 
[2685] [2686] [2687]
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 []          \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t
o.data.frame,[] 
[2688]
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 []          \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen
d", "no"),[] 
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[]\T1/ptm/m/n/10 character: what to do with du-pli-cated value la-bels for dif-
fer-ent lev-
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\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
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\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,
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[]\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with
 du-
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\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
[2689]
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[]\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / 
en-[]us / windows / win32 / intl /
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[]\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/
ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute
[2690]
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 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg
ument settings.[] 
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 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to 
R factor labels) are uncomplete,[] 
[2691]
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 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ
ate variables[] 
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 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt
h=w), "\n"))[] 
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 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, 
collapse="")[] 
[2692] [2693]
Underfull \hbox (badness 10000) in paragraph at lines 812--813
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 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f
oreign")[1])[] 
[2694]
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[]\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o
ut of a Data
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\T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p
cr/m/n/10 https : / / support .
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\T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap
ers /
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\T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s
et-[]in-[]sas-[]transport-[]xport-[]format .
[2695]
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 []  \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G
lobalEnv) 
[2696]
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 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute
(x))) 
[2697] [2698]
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[][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase 
/ format / data _ types .
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 []          \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", 
"codes"))[] 
[2699] [2700]
Underfull \hbox (badness 10000) in paragraph at lines 1270--1276
[]\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig
n:::writeForeignStata[]\T1/ptm/m/n/10 ,
[2701]
Underfull \hbox (badness 2088) in paragraph at lines 1296--1299
[]\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid
e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET
[2702]) (./lattice-pkg.tex
Chapter 23.
[2703]
Underfull \hbox (badness 2073) in paragraph at lines 117--121
\T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [
][]$\T1/pcr/m/n/10 http : / / web . archive . org /
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\T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / 
ms / departments / sia /
[2704] [2705]
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 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
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 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.xyplot"),[] 
[2706]
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 []        \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul
t.dotplot"),[] 
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 []         \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"),[] 
Overfull \hbox (30.78088pt too wide) in paragraph at lines 338--338
 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.bwplot"),[] 
[2707] [2708] [2709] [2710]
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[]\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
[2711] [2712] [2713] [2714]
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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.
[2715]
Underfull \hbox (badness 1661) in paragraph at lines 1099--1105
[]\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
[2716] [2717]
Underfull \hbox (badness 1097) in paragraph at lines 1225--1227
[]\T1/ptm/m/n/10 Logical flag, whether leg-end should have a
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[]\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to
[2718] [2719] [2720]
Underfull \hbox (badness 1540) in paragraph at lines 1479--1485
[]\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 ,
[2721]
Underfull \hbox (badness 10000) in paragraph at lines 1566--1583
[][][]\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 ,
[2722]
Underfull \vbox (badness 10000) has occurred while \output is active [2723]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 1671--1671
 []                  \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar
dSprays$rowpos))),[] 
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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
[2724]
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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
Underfull \hbox (badness 10000) in paragraph at lines 1825--1827
[]\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix
 An-drews
[2725] [2726] [2727] [2728]
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 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl
ot"),[] 
[2729]
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[]\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 2141--2144
[]\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs
t checked. If
[2730] [2731] [2732]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 2345--2345
 []       \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le
vels"),[] 
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 []       \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default
.qqmath"),[] 
[2733] [2734] [2735] [2736] [2737]
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 []          \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev
elplot.raster")[] 
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 []                \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl
ot"),[] 
[2738] [2739]
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[]\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.
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[]\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
[2740]
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[]\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 2925--2927
[]\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/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
[2741]
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[]\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
[2742]
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 []      \T1/pcr/m/n/10 xlim = if (is.factor(x)) levels(x) else range(x, finite
 = TRUE),[] 
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 []      \T1/pcr/m/n/10 ylim = if (is.factor(y)) levels(y) else range(y, finite
 = TRUE),[] 
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 []      \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite
 = TRUE),[] 
[2743]
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 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
cloud"),[] 
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 []          \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa
ult.wireframe"),[] 
[2744]
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[]\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 3187--3194
[]\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
[2745] [2746] [2747]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.parallel}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.3475 \aliasA{parallel}{B\_08\_splom}{parallel}
                                                 [2748]
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 []      \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default.
splom"),[] 
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 []         \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau
lt.parallel"),[] 
[2749] [2750] [2751] [2752] [2753]
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 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt(
var(x))) 
[2754] [2755]
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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
[2756]
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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
[2757]
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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
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[]\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
[2758]
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[]\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,
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\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
[2759] [2760]
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[]\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 ,
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[]\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
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[]\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
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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
[2761] [2762] [2763] [2764] [2765]
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 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab
 = "Height")[] 
[2766] [2767]
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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 .
[2769] [2770]
Underfull \hbox (badness 1442) in paragraph at lines 5087--5090
[]\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
[2771] [2772] [2773] [2774] [2775]
Underfull \hbox (badness 3646) in paragraph at lines 5426--5429
[][][]\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],[] 
[2776]
Underfull \hbox (badness 10000) in paragraph at lines 5545--5548
[]\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 5545--5548
[]\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
[2777]
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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
[2778] [2779]
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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",[] 
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 []                                                 \T1/pcr/m/n/10 prefix = pre
fix),[] 
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 []                 \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi
ch.panel",[] 
[2780]
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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
[2781]
Underfull \hbox (badness 2538) in paragraph at lines 5907--5911
\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 5918--5925
[]\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 5918--5925
[]\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
[2782] [2783]
Underfull \hbox (badness 10000) in paragraph at lines 6071--6075
[][][]\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 ,
[2784]
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[2786]
Underfull \hbox (badness 4242) in paragraph at lines 6218--6223
[]\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li
s pa-ram-e-
[2787] [2788]
Underfull \hbox (badness 3601) in paragraph at lines 6334--6339
[]\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 6334--6339
\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
[2789]
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 []             \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co
lors")$palette,[] 
[2790] [2791]
Underfull \hbox (badness 1888) in paragraph at lines 6553--6560
[]\T1/pcr/m/n/10 at []\T1/ptm/m/n/10 can be a nu-meric vec-tor, []\T1/pcr/m/n/1
0 col.regions []\T1/ptm/m/n/10 a vec-tor of col-ors, and
[2792]
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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/pcr/m/n/10 shade.colors.palette []\T1/ptm/m/n/10 func-tion should re-turn
 a valid color. The
[2793] [2794] [2795] [2796] [2797]
Underfull \hbox (badness 1320) in paragraph at lines 7016--7023
[]\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 7016--7023
\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
[2798] [2799]
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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
[2800] [2801]
Underfull \hbox (badness 10000) in paragraph at lines 7221--7224
\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
[2802] [2803]
Underfull \hbox (badness 2012) in paragraph at lines 7387--7390
[]\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu
-ally passed on to
[2804]
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 []                  \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta
ils.n = 50))[] 
[2805] [2806]
Underfull \hbox (badness 2644) in paragraph at lines 7574--7578
[]\T1/ptm/m/n/10 ig-nores these. For types "r" and "smooth", these are passed o
n to
Underfull \hbox (badness 2772) in paragraph at lines 7587--7590
[]\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
[2807]
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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),[] 
[2808]
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 []        \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam
e.type)[] 
Overfull \hbox (72.78088pt too wide) in paragraph at lines 7733--7733
 []      \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ident
ifier, name.type)[] 
[2809] [2810] [2811]
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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")[] 
Underfull \hbox (badness 1436) in paragraph at lines 7973--7979
[]\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
[2812] [2813] [2814] [2815] [2816] [2817] [2818] [2819]
Underfull \hbox (badness 10000) in paragraph at lines 8531--8534
[]\T1/ptm/m/n/10 Extra ar-gu-ments. Passed down to []\T1/pcr/m/n/10 panel.super
pose
Underfull \hbox (badness 10000) in paragraph at lines 8531--8534
[]\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
[2820] [2821]
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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, ...)[] 
[2822]
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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
[2823]
Underfull \hbox (badness 1515) in paragraph at lines 8814--8818
[]\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti
es. If used with
[2824] [2825]
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[]\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr
ibed in
[2826]
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 []                \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b
ottom$labels$labels)[] 
[2827] [2828]
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 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su
nspot.year)),[] 
[2829]
Underfull \hbox (badness 1028) in paragraph at lines 9228--9232
\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,
[2830] [2831] [2832] [2833] [2834] [2835] [2836]
Underfull \hbox (badness 7238) in paragraph at lines 9692--9696
[]\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 ,
Underfull \hbox (badness 10000) in paragraph at lines 9692--9696
[]\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 ,
[2837] [2838] [2839]pdfTeX warning (ext4): destination with the same identifier
 (name{Rfn.melanoma}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9923 \aliasA{melanoma}{H\_melanoma}{melanoma}
                                                [2840] [2841] [2842]
Underfull \hbox (badness 10000) in paragraph at lines 10085--10090
\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),[] 
[2843] [2844]) (./mgcv-pkg.tex
Chapter 24.
[2845] [2846]
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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,[] 
[2847]
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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.
[2848] [2849] [2850] [2851]
Underfull \hbox (badness 10000) in paragraph at lines 379--386
[][][]\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
 ,
Underfull \hbox (badness 10000) in paragraph at lines 379--386
[][][]\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 ,
[2852]
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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)+[] 
[2853] [2854] [2855]
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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
[2856] [2857]
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
[2858] [2859]
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
[2860]
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).
[2861]
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[2863] [2864] [2865] [2866] [2867] [2868] [2869]
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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$h[ind])
,lwd=2,col=i)[] 
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 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights=
d,data=surv)[] 
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[2872]
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 []  \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid),
 initial = 0,[] 
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 []    \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][
nrow(um)] <- 1[] 
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 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter
polate to te[] 
[2874] [2875] [2876] [2877] [2878] [2879]
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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)[] 
[2880] [2881] [2882] [2883]
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 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str
ict=FALSE) 
[2884] [2885] [2886] [2887] [2888] [2889] [2890]
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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
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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.
[2891] [2892] [2893]
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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
[2894] [2895]
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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 ,
[2896]
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[2900] [2901]
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 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1
e-07, maxit = 200, 
[2902] [2903] [2904] [2905] [2906] [2907]
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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,...)[] 
[2908] [2909] [2910] [2911] [2912] [2913] [2914] [2915]
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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
[2916] [2917]
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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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[2919] [2920]
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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
[2921] [2922] [2923] [2924] [2925] [2926] [2927]
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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)+[] 
[2928] [2929] [2930]
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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, 
[2931] [2932]
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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
[2933]
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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
[2934] [2935]
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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 .
[2936]
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[2938] [2939] [2940]
Underfull \hbox (badness 1577) in paragraph at lines 5614--5617
[]\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
[2941] [2942] [2943] [2944] [2945] [2946] [2947]
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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
[2948] [2949]
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 []  \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d
ata. A simple plotting[] 
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 []      \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j]
,lty=lty[j])[] 
[2950]
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 []  \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo
r comparison[] 
[2951] [2952]
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 []       \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r
norm(100)*.4[] 
[2953] [2954] [2955] [2956] [2957]
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 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n
a.action, 
[2958]
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 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona
lize=FALSE)[] 
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\T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t
aken from
[2959] [2960] [2961]
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[2963] [2964]
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 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999,
all.derivs=FALSE) 
[2965] [2966] [2967] [2968]
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[2971] [2972]
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 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want
 to rule the world.",[] 
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 []      \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y),
nthreads=1)[] 
[2973] [2974] [2975] [2976] [2977] [2978] [2979] [2980] [2981]
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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
[2982] [2983]
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 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt
ion with bam...[] 
[2984] [2985]
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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)[] 
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[2987] [2988] [2989] [2990] [2991] [2992] [2993] [2994] [2995] [2996] [2997]
[2998] [2999] [3000] [3001] [3002] [3003]
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[3005]
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[]\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 9310--9313
[]\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 9310--9313
[]\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 .
[3006]
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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 ,
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[]\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
[3007] [3008] [3009]
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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 n=100,n2=40,n3=3,pers=FALSE,theta=30,phi=30,jit=FALS
E,xlab=NULL,[] 
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 []         \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi
ds=FALSE,[] 
[3010] [3011] [3012]
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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
[3013] [3014] [3015] [3016]
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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-
[3017] [3018] [3019]
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 []        \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL
L,...)[] 
[3020] [3021]
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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))[] 
[3022]
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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[] 
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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
[3025]
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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
[3026]
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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,
[3027] [3028] [3029]
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[]\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,
[3030] [3031] [3032] [3033] [3034]
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[]\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
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\T1/ptm/m/n/10 way that the smooths are rep-re-sented --- as pe-nal-ized re-gre
s-sion terms. This method
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\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:
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\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.
[3035]
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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)[] 
[3036]
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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 ,
[3037] [3038] [3039] [3040] [3041]
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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) 
[3042] [3043] [3044] [3045] [3046] [3047]
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 []  \T1/pcr/m/n/9 true <- mu + (del * sigma) * sinh((1/del) * asinh(qnorm(qq))
 + (eps/del))[] 
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 []\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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[3049]
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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
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 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, 
cov = TRUE,[] 
[3050]
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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 11964--11968
[]\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-
[3051] [3052] [3053]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 12108--12108
 [] \T1/pcr/m/n/9 range(er$values-um$values[ind]);range(abs(er$vectors)-abs(um$
vectors[,ind]))[] 
Underfull \hbox (badness 1975) in paragraph at lines 12119--12124
[]\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
[3054]
Underfull \hbox (badness 1803) in paragraph at lines 12196--12200
\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 12208--12220
[]\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
[3055]
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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 12225--12229
\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 ,
[3056] [3057] [3058]
Underfull \hbox (badness 6876) in paragraph at lines 12420--12426
[][][]\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
[3059]
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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
[3060] [3061]
Underfull \hbox (badness 10000) in paragraph at lines 12579--12580
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3062]
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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 12645--12645
 []  \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5,
1.5) (black)[] 
[3063]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12657--12657
 []  \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 12662--12662
 []  \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[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 12669--12669
 []  \T1/pcr/m/n/9 ## extrapolation since penalty has been \TS1/pcr/m/n/9 `\T1/
pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] 
[3064]
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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 12738--12740
\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
[3065] [3066]
Underfull \hbox (badness 10000) in paragraph at lines 12868--12869
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3067] [3068]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 12949--12949
 []\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 12950--12950
 []\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[] 
[3069] [3070]
Underfull \hbox (badness 10000) in paragraph at lines 13103--13104
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3071] [3072] [3073] [3074] [3075]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13353--13353
 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m
ethod="REML")[] 
[3076]
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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
[3077] [3078]
Underfull \hbox (badness 10000) in paragraph at lines 13573--13576
[]\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 13573--13576
\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 13573--13576
[]\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"
[3079] [3080]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 13659--13659
 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with
 2 variances[] 
[3081]
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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 13704--13710
[]\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-
[3082] [3083] [3084]
Overfull \hbox (36.7804pt too wide) in paragraph at lines 13918--13918
 []\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 [3086]
Underfull \hbox (badness 10000) in paragraph at lines 14021--14029
[][][]\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 14047--14048
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3087] [3088] [3089]
Underfull \hbox (badness 7613) in paragraph at lines 14192--14195
[]\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
[3090]
Underfull \hbox (badness 1546) in paragraph at lines 14213--14214
[]\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 14259--14259
 []\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")[] 
[3091] [3092] [3093]
Underfull \hbox (badness 3396) in paragraph at lines 14405--14408
[][][]\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 14450--14452
[]\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a 
term
[3094] [3095] [3096] [3097] [3098] [3099]
Underfull \hbox (badness 10000) in paragraph at lines 14741--14743
[]\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see
Underfull \hbox (badness 10000) in paragraph at lines 14771--14775
[][][]\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[][][] [][]tprs[][][][]\T1/ptm/m/n/10 ,[
][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 
cubic.regression.spline[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 p.spline[][
][][]\T1/ptm/m/n/10 ,
Underfull \hbox (badness 10000) in paragraph at lines 14771--14775
[][][]\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 14771--14775
[][][]\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 ,
[3100] [3101] [3102] [3103] [3104]
Underfull \hbox (badness 2158) in paragraph at lines 15061--15061
[]\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma-
trix from
[3105] [3106]
Overfull \hbox (48.78088pt too wide) in paragraph at lines 15140--15140
 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0,
centre=FALSE)[] 
[3107] [3108]
Overfull \hbox (12.78088pt too wide) in paragraph at lines 15274--15274
 []                  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars
"),...)[] 
[3109] [3110]
Underfull \hbox (badness 4846) in paragraph at lines 15405--15408
[]\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
[3111] [3112] [3113] [3114] [3115] [3116] [3117] [3118] [3119] [3120] [3121]
[3122] [3123] [3124] [3125] [3126] [3127] [3128] [3129] [3130]
Overfull \hbox (120.78088pt too wide) in paragraph at lines 16623--16623
 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL,
unconditional=FALSE, ...)[] 
[3131]
Underfull \hbox (badness 1715) in paragraph at lines 16645--16646
[]\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
[3132] [3133] [3134]
Overfull \hbox (54.78088pt too wide) in paragraph at lines 16835--16835
 []\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 16837--16837
 []\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 16839--16839
 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt=
NULL)[] 
[3135]
Underfull \hbox (badness 10000) in paragraph at lines 16859--16860
[]\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows
Underfull \hbox (badness 1668) in paragraph at lines 16859--16860
[]\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
[3136]
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[3138]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 17047--17047
 []\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 17048--17048
 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun
ded in regions[] 
[3139]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 17060--17060
 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val
ues, to check we[] 
[3140] [3141] [3142]) (./nlme-pkg.tex
Chapter 25.
[3143]
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
[3144]
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
[3145] [3146] [3147] [3148] [3149]
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,[] 
[3150] [3151]
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 ---------------------------
---------------[] 
[3152] [3153] [3154] [3155] [3156] [3157] [3158] [3159]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 1085--1085
 []                  \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil
lary fissure"),[] 
[3160]
Underfull \hbox (badness 5446) in paragraph at lines 1147--1149
[]\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
[3161] [3162] [3163] [3164] [3165] [3166] [3167]
Underfull \hbox (badness 10000) in paragraph at lines 1630--1633
[][][]\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 
,
[3168]
Underfull \hbox (badness 3780) in paragraph at lines 1647--1649
[]\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
[3169] [3170] [3171] [3172] [3173]
Underfull \hbox (badness 2042) in paragraph at lines 1996--2002
\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 ,
[3174]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2058--2058
 []\T1/pcr/m/n/9 collapse(Pixel, collapse = 1)  # same as collapse(Pixel, colla
pse = "Dog")[] 
[3175]
Underfull \hbox (badness 1132) in paragraph at lines 2147--2149
[]\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac
ted us-ing the
[3176] [3177]
Underfull \hbox (badness 4168) in paragraph at lines 2258--2264
[][][]\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 ,
[3178]
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 []  \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres
sure^4))*QB,[] 
[3179] [3180] [3181] [3182] [3183] [3184] [3185] [3186]
Underfull \hbox (badness 10000) in paragraph at lines 2849--2853
[][][]\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 ,
[3187] [3188] [3189] [3190] [3191] [3192pdfTeX warning (ext4): destination with
 the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d
uplicate ignored
\AtBegShi@Output ...ipout \box \AtBeginShipoutBox 
                                                  \fi \fi 
l.3193 ...trix(cs1, covariate = 1:4, corr = FALSE)
                                                  ] [3193] [3194] [3195]
[3196] [3197] [3198]
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[][][]\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 ,
[3199] [3200] [3201] [3202] [3203] [3204] [3205] [3206] [3207] [3208] [3209]
[3210] [3211] [3212] [3213] [3214] [3215] [3216] [3217] [3218] [3219] [3220]
[3221] [3222]
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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 ,
[3223] [3224] [3225] [3226] [3227] [3228] [3229]
Underfull \hbox (badness 10000) in paragraph at lines 5597--5600
[][][]\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 ,
[3230] [3231] [3232] [3233] [3234] [3235] [3236] [3237] [3238]
Underfull \hbox (badness 2799) in paragraph at lines 6103--6109
\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
[3239]
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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 ,
[3240]
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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 ,
[3241]
Underfull \hbox (badness 10000) in paragraph at lines 6317--6319
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3242] [3243] [3244] [3245]
Underfull \hbox (badness 7133) in paragraph at lines 6566--6570
[]\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 ,
[3246]
Underfull \hbox (badness 10000) in paragraph at lines 6665--6671
[][][]\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 6692--6692
 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min
Scale = 0.001, 
[3247]
Underfull \hbox (badness 10000) in paragraph at lines 6730--6732
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3248] [3249] [3250] [3251]
Underfull \hbox (badness 10000) in paragraph at lines 7002--7009
[][][]\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 ,
[3252]
Overfull \hbox (15.18042pt too wide) in paragraph at lines 7020--7020
 []                \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla
ry fissure" ),[] 
Overfull \hbox (4.38043pt too wide) in paragraph at lines 7025--7025
 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new )   # fixed and groups formulae extracted
 from object[] 
Underfull \hbox (badness 2875) in paragraph at lines 7047--7049
[]\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
[3253] [3254] [3255]
Underfull \hbox (badness 10000) in paragraph at lines 7262--7267
[][][]\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 ,
[3256] [3257] [3258]
Underfull \hbox (badness 1997) in paragraph at lines 7414--7422
[]\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 7414--7422
\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 7437--7440
[][][]\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 ,
[3259] [3260] [3261]
Underfull \hbox (badness 3354) in paragraph at lines 7653--7655
[]\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
[3262] [3263] [3264] [3265] [3266] [3267] [3268] [3269]
Underfull \hbox (badness 10000) in paragraph at lines 8170--8187
[][][]\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 8170--8187
[][][]\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 ,
Overfull \hbox (12.78088pt too wide) in paragraph at lines 8213--8213
 []    \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data 
= TRUE)[] 
[3270]
Underfull \hbox (badness 1642) in paragraph at lines 8222--8244
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o
f the form
[3271] [3272] [3273] [3274]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 8487--8487
 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni
terEM = 25, 
Underfull \hbox (badness 10000) in paragraph at lines 8535--8537
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3275]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 8579--8579
 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio
ns be printed[] 
[3276] [3277] [3278] [3279] [3280] [3281] [3282] [3283] [3284] [3285] [3286]
[3287]
Underfull \hbox (badness 10000) in paragraph at lines 9336--9343
[][][]\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 9347--9347
 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me
thod = "ML") 
[3288] [3289] [3290] [3291] [3292]pdfTeX warning (ext4): destination with the s
ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored
<to be read again> 
                   \relax 
l.9698 ...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.9698 ...rA{Matrix}{Assign Matrix Values}{Matrix}
                                                   [3293]
Underfull \hbox (badness 10000) in paragraph at lines 9718--9721
[]\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 9762--9765
[]\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 9762--9765
\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
[3294] [3295] [3296] [3297] [3298] [3299] [3300] [3301] [3302] [3303] [3304]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10442--10442
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights, 
[3305]
Underfull \hbox (badness 1596) in paragraph at lines 10471--10497
[]\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o
f the form
[3306] [3307] [3308]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 10647--10647
 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, 
weights,[] 
[3309] [3310]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 10798--10798
 []            \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma =
 NULL, ...)[] 
Underfull \hbox (badness 2213) in paragraph at lines 10809--10814
[]\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[][][]
[3311]
Underfull \hbox (badness 6961) in paragraph at lines 10831--10835
[]\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=
Underfull \hbox (badness 10000) in paragraph at lines 10850--10852
[]\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D
e-fault is
[3312] [3313] [3314] [3315]
Overfull \hbox (96.18033pt too wide) in paragraph at lines 11141--11141
 []\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 11142--11142
 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4
.0.0;  ("matrix" in older R)[] 
[3316] [3317] [3318] [3319] [3320] [3321]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 11532--11532
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3322] [3323] [3324] [3325] [3326] [3327]
Underfull \hbox (badness 6268) in paragraph at lines 11919--11929
[][][]\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 ,
[3328] [3329] [3330] [3331]
Underfull \hbox (badness 10000) in paragraph at lines 12180--12186
[][][]\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 ,
[3332] [3333] [3334] [3335] [3336]
Underfull \hbox (badness 6876) in paragraph at lines 12502--12504
[]\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
[3337] [3338]
Underfull \hbox (badness 2452) in paragraph at lines 12658--12665
[][][]\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 ,
[3339]
Underfull \hbox (badness 10000) in paragraph at lines 12723--12729
[][][]\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 ,
[3340] [3341] [3342] [3343] [3344] [3345] [3346] [3347] [3348]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 13312--13312
 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo
nt)), .. lme(*)) 
[3349] [3350] [3351] [3352] [3353]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 13677--13677
 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 
0, id = 0.05)[] 
[3354]
Underfull \hbox (badness 10000) in paragraph at lines 13704--13707
[]\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
[3355]
Underfull \hbox (badness 1838) in paragraph at lines 13747--13754
[]\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 13747--13754
[]\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 13804--13804
 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect,
 panel,[] 
[3356]
Underfull \hbox (badness 10000) in paragraph at lines 13811--13814
[]\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 13811--13814
[]\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
[3357]
Underfull \hbox (badness 10000) in paragraph at lines 13919--13922
[]\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
[3358] [3359]
Underfull \hbox (badness 10000) in paragraph at lines 14013--14015
[][][]\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 ,
[3360] [3361] [3362] [3363] [3364] [3365] [3366] [3367]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 14537--14537
 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female",
"Male","Male"),[] 
[3368] [3369] [3370] [3371] [3372] [3373] [3374] [3375] [3376]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.15190 ...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.15190 ...Extract Random Effects}{random.effects}
                                                   [3377] [3378] [3379]
[3380] [3381] [3382] [3383] [3384] [3385] [3386]
Underfull \hbox (badness 2126) in paragraph at lines 15830--15834
[]\T1/ptm/m/n/10 Charles F. Minto, Thomas W. Schnider and Steven L. Shafer (199
7). Phar-ma-coki-net-
[3387]
Overfull \hbox (25.98041pt too wide) in paragraph at lines 15838--15838
 []\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 
Overfull \hbox (31.3804pt too wide) in paragraph at lines 15857--15857
 []    \T1/pcr/m/n/9 stopifnot(all.equal(BSA, Wt^{0.425} * Ht^{0.725} * 0.00718
4, tol = 1.5e-5),[] 
Overfull \hbox (15.18042pt too wide) in paragraph at lines 15858--15858
 []              \T1/pcr/m/n/9 all.equal(LBM, LBMfn(Wt, Ht, Sex),              
   tol = 7e-7)[] 
[3388]
Underfull \hbox (badness 1009) in paragraph at lines 15888--15897
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3389] [3390]
Overfull \hbox (66.78088pt too wide) in paragraph at lines 16035--16035
 []          \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi
st = FALSE, ...)[] 
[3391] [3392] [3393] [3394] [3395]
Underfull \hbox (badness 10000) in paragraph at lines 16370--16376
[][][]\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 ,
[3396]
Overfull \hbox (18.78088pt too wide) in paragraph at lines 16401--16401
 []         \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG
en, ...)[] 
[3397] [3398] [3399] [3400] [3401] [3402] [3403]
Underfull \hbox (badness 1728) in paragraph at lines 16889--16892
[]\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou
t-put in the
[3404] [3405] [3406] [3407] [3408]
Underfull \hbox (badness 1803) in paragraph at lines 17223--17232
\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 17223--17232
\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 17223--17232
\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)
[3409]
Underfull \hbox (badness 10000) in paragraph at lines 17294--17295
[]\T1/pcr/m/n/10 "Constant plus power of variance
Underfull \hbox (badness 10000) in paragraph at lines 17295--17296
[]\T1/pcr/m/n/10 "Constant plus proportion of variance
[3410] [3411] [3412] [3413]
Underfull \hbox (badness 10000) in paragraph at lines 17545--17553
[][][]\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 ,
[3414] [3415] [3416] [3417]
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 []\T1/pcr/m/n/9 # Generate some synthetic data using the two-component error m
odel and use 
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 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v
ariance function[] 
[3418] [3419] [3420] [3421] [3422] [3423]
Underfull \hbox (badness 10000) in paragraph at lines 18255--18265
[][][]\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 18255--18265
[][][]\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 ,
[3424]
Underfull \hbox (badness 3579) in paragraph at lines 18293--18298
\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
[3425]
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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
[3426]
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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
[3427]
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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
[3428]
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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
Underfull \hbox (badness 10000) in paragraph at lines 18579--18588
[][][]\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 18579--18588
[][][]\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 ,
[3429]
Underfull \hbox (badness 3579) in paragraph at lines 18618--18623
\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
[3430] [3431]
Underfull \hbox (badness 1009) in paragraph at lines 18764--18773
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3432] [3433]
Underfull \hbox (badness 1009) in paragraph at lines 18896--18905
[]\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served 
- fit-ted) are used; else, if
[3434] [3435] [3436] [3437] [3438] [3439] [3440] [3441] [3442]) (./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}
                                                   [3443]
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 []         \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored =
 FALSE,[] 
[3444] [3445] [3446]
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 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3447]
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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)[] 
[3448] [3449]
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 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 
2, rang = 0.1,[] 
[3450]) (./rpart-pkg.tex
Chapter 27.
[3451] [3452] [3453] [3454]
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 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse =
 TRUE, ...)[] 
[3455] [3456] [3457] [3458]
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[]\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
[3459] [3460]
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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
[3461] [3462] [3463]
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"),[] 
[3464] [3465] [3466] [3467]
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
[3468]
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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, 
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 []              \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate 
= 2, xval = 10,[] 
[3469] [3470] [3471] [3472] [3473] [3474] [3475]
Underfull \hbox (badness 1565) in paragraph at lines 1760--1763
[]\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 ',
[3476]
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 []     \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n =
 FALSE,[] 
[3477] [3478] [3479]) (./spatial-pkg.tex [3480]
Chapter 28.
[3481] [3482] [3483] [3484] [3485] [3486]
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[3487] [3488] [3489] [3490] [3491] [3492] [3493] [3494] [3495] [3496] [3497]
[3498] [3499]) (./survival-pkg.tex [3500]
Chapter 29.
[3501] [3502]
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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.[] 
[3503] [3504]
Underfull \hbox (badness 6412) in paragraph at lines 284--286
[]\T1/ptm/m/n/10 an op-tional list or vec-tor of group-ing el-e-ments, each as 
long as
[3505] [3506]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}
                                                   [3507]
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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)[] 
[3508]
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 []    \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog),
 lung)[] 
[3509] [3510] [3511]
Overfull \hbox (20.58041pt too wide) in paragraph at lines 769--769
 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) #
2 year survival 
[3512]
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 []    \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan",
"II.Borgan"),[] 
[3513] [3514]
Overfull \hbox (9.78043pt too wide) in paragraph at lines 935--935
 []   \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz
e=stratsizes,[] 
[3515] [3516] [3517]
Underfull \hbox (badness 1097) in paragraph at lines 1106--1108
[]\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[] 
[3518] [3519]
Overfull \hbox (31.3804pt too wide) in paragraph at lines 1241--1241
 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat
um), data=infert) 
[3520]
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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.1308 ...erapy for Stage B/C colon cancer}{colon}
                                                  
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 []  \T1/pcr/m/n/10 cluster, ymin, ymax, timewt= c("n", "S", "S/G", "n/G", "n/G
2", "I"),[] 
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 []  \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke
epstrata=10, ...)[] 
[3522] [3523] [3524]
Overfull \hbox (36.78088pt too wide) in paragraph at lines 1598--1598
 [] \T1/pcr/m/n/10 timewt = c("n", "S", "S/G", "n/G", "n/G2", "I"), cluster, in
fluence =0,[] 
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 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob
al=TRUE) 
[3525] [3526] [3527] [3528] [3529]
Underfull \hbox (badness 10000) in paragraph at lines 1964--1979
[]\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 +
[3530]
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[][][]\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 ,
[3531]
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 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix
=TRUE)[] 
[3532] [3533] [3534] [3535] [3536] [3537] [3538] [3539]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 2717--2717
 [] \T1/pcr/m/n/9 [1] "extreme"     "logistic"    "gaussian"    "weibull"     "
exponential"[] 
[3540]
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 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, 
etype, 
[3541] [3542] [3543]
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 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t
df = 5,[] 
[3544] [3545] [3546]
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[3548]
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 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt
y(id), kidney) 
[3549]
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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 3366--3368
[]\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
Overfull \hbox (12.78088pt too wide) in paragraph at lines 3377--3377
 []        \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar
csin"),[] 
[3550] [3551]
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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 )))[] 
[3552] [3553]
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 [] [] 
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[3555]
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 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential
ly the same.[] 
[3556] [3557] [3558] [3559] [3560] [3561] [3562]
Overfull \hbox (4.38043pt too wide) in paragraph at lines 4210--4210
 []                    \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 )))[] 
[3563] [3564]
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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))[] 
[3565]
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 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 '
\T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1
/pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] 
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 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1])  # differences: yhat[2:
4] - yhat[1][] 
[3566] [3567]
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[3569] [3570] [3571]
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 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca
le=1,[] 
[3572] [3573] [3574]
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 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), 
collapse,[] 
[3575] [3576]
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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)[] 
[3577]
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 []\T1/pcr/m/n/9 pct <- 1:98/100   # The 100th percentile of predicted survival
 is at +infinity[] 
[3578]
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 []  \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE
, ...)[] 
[3579]
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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
[3580] [3581] [3582]
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 []\T1/pcr/m/n/10 pseudo(fit, times, type, addNA=TRUE, data.frame=FALSE, minus1
=FALSE, ...) 
[3583]
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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[] 
[3584]
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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, ...)[] 
[3585] [3586]
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 []  \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year=
entry.dt),[] 
[3587]
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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)) +[] 
[3588] [3589] [3590] [3591] [3592] [3593] [3594]
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 []       \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe
tas")), ...)[] 
[3595] [3596] [3597]
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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
[3598] [3599] [3600] [3601] [3602]
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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)[] 
[3603] [3604]
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 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id
, timefix = TRUE) 
[3605]
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 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)]  # rem
ove duplicate times[] 
[3606]
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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.7224 ...ata from a soldering experiment}{solder}
                                                   [3607]
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 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1,
 col = 1, 
[3608] [3609] [3610] [3611] [3612] [3613]
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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,[] 
[3614] [3615] [3616] [3617]
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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 ),[] 
[3618] [3619] [3620] [3621]
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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
[3622] [3623]
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 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat
e0="(s0)", 
[3624] [3625] [3626]
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 []                  \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1
, year=accept.dt),[] 
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 []        \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv
idual.h",[] 
[3627]
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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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 []                      \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d
t-entry.dt)),[] 
[3628]
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 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival 
by 1/2 years[] 
[3629] [3630] [3631] [3632]
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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 
,
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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"),[] 
[3633] [3634] [3635]
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 []        \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi
x=TRUE,[] 
[3636]
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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,
[3637] [3638]
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 []\T1/pcr/m/n/9 #  There are no interval censored subjects, only left-censored
 (status=3),[] 
[3639] [3640] [3641] [3642] [3643]
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 []\T1/pcr/m/n/10 survfitcoxph.fit(y, x, wt, x2, risk, newrisk, strata, se.fit,
 survtype, 
[3644]
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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
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 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # 
use concordance 
[3645] [3646] [3647]
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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
[3648]
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 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi
on. The survreg[] 
[3649]
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[3650] [3651]
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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 )[] 
[3652]
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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 )[] 
[3653] [3654] [3655]
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 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100
0, data=test)[] 
[3656] [3657]
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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[] 
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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)[] 
[3658] [3659] [3660] [3661] [3662] [3663] [3664]
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 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l
inear",[] 
[3665] [3666] [3667]) [3668] (./fullrefman.ind [3669] [3670] [3671] [3672]
[3673] [3674] [3675] [3676] [3677] [3678] [3679] [3680] [3681] [3682] [3683]
[3684] [3685] [3686] [3687] [3688] [3689] [3690] [3691] [3692] [3693]
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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.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 , 
[3694] [3695] [3696] [3697] [3698] [3699]
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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.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 , 
[3700] [3701]
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[]| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , 
[3702] [3703] [3704] [3705] [3706] [3707] [3708] [3709]
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[]\T1/pcr/m/n/10 [,CsparseMatrix,index,index,logical-method 
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[]\T1/pcr/m/n/10 [,CsparseMatrix,index,missing,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,missing-method 
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[]\T1/pcr/m/n/10 [,Matrix,lMatrix,missing,missing-method 
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[]\T1/pcr/m/n/10 [,Matrix,logical,missing,missing-method 
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[]\T1/pcr/m/n/10 [,Matrix,matrix,missing,ANY-method 
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[]\T1/pcr/m/n/10 [,Matrix,matrix,missing,missing-method 
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[]\T1/pcr/m/n/10 [,Matrix,nMatrix,missing,missing-method 
[3710]
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[3711]
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[3712]
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[3713]
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[3715]
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[3737]
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[3738]
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[3739]
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TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi
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[3] [4] [5] [6]
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 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics''
. 
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 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, 
[7] [8] [9] [10] Chapter 3 [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4
[19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27]
[28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38]
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[39] [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] [46] Chapter 10 [47]
[48] )
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 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics''
. 
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 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, 
[7] [8] [9] [10] Chapter 3 [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4
[19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27]
[28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38]
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[39] [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] [46] Chapter 10 [47]
[48] )
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[1] Chapter 2 [2] Cross reference values unknown; you must run TeX again.
[3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16]
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[]@textrm Parallel check-ing of pack-age sources (part of @texttt make check-de
vel[] @textrm and @texttt make
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[26]
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 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm
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[27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] Chapter 9 [35]
[36] Appendix A [37] [38] [39]
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[40] [41] [42] [43] [44] [45] [46] [47] [48] [49] Appendix B [50] [51] [52]
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[61]
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[62] [63]
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[][][][][]@smalltt https: / / cran . r-project . org / bin / macosx / RMacOSX-F
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[65] [66] [67] [68]
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[69] (Function and variable index) [70]
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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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[26]
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[27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] Chapter 9 [35]
[36] Appendix A [37] [38] [39]
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[40] [41] [42] [43] [44] [45] [46] [47] [48] [49] Appendix B [50] [51] [52]
[53] [54] Appendix C [55] [56] [57] [58] [59] [60]
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l.5231: Undefined cross reference ` Tcl/Tk headers and libraries-snt'.
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[][][]@smallrm See [][]@smalltt https: / / developer . apple . com / documentat
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[62] [63]
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[64]
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[][][][][]@smalltt https: / / cran . r-project . org / bin / macosx / RMacOSX-F
AQ . html # Which-BLAS-is-used-and-how-can-it-be-changed_003f[][][]| 
[65] [66] [67] [68]
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[69] (Function and variable index) [70] (Concept index) [71]
(Environment variable index) [72] [73] )
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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]
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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]
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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] [15] [16] [17]
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, "--no-test-load")[] 
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[18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29]
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pp model/*/*.cpp model/*/*/*.cpp)[] 
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a07models.o $(SOURCES:.cpp=.o)[] 
[30] [31] [32]
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[][][]@smallrm Some changes are linked from [][]@smalltt https: / / isocpp . or
g / std / standing-documents /
[33]
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11PICFLAGS)")[] 
[34] [35] [36]
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 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin
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[37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51]
[52] [53]
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[54] [55] [56] [57] [58]
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 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19
 20 21)[] 
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ersion")[] 
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= "."))[] 
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version 52.0[] 
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 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b
e looked for
[60] [61] [62] [63] [64] [65] [66] [67]
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 []@texttt 'register' storage class specifier is deprecated and incompatible wi
th C++17[] 
[68] [69] [70] [71] [72] [73] Chapter 2 [74] [75] [76] [77] [78] [79] [80]
[81] [82] [83] [84] [85] [86]
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[]@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi
lename@texttt }[] @textrm and
[87]
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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
[88] [89] [90] [91] Chapter 3 [92] [93] [94] [95] [96] [97] [98] Chapter 4
[99] [100] [101] [102] [103] [104]
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[]@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by
 e.g.
[105] [106] [107]
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[][][]@smallrm see [][]@smalltt https: / / llvm . org / devmtg / 2014-04 / PDFs
 / LightningTalks / EuroLLVM%202014%20--%20container%20overflow .
[108]
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[110] [111]
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[112] [113] [114] [115] [116]
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 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to 
INTEGER(4)[] 
Chapter 5 [117] [118] [119] [120] [121] [122] [123] [124] [125] [126]
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 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de
riv, PACKAGE = "splines")[] 
[127] [128] [129] [130] [131] [132] [133]
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" -lpackB[] 
[134] [135] [136] [137] [138] [139] [140] [141] [142] [143]
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[]@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated
3[] @textrm are fast ver-sions of R's
[144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155]
[156]
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[157]
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 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE
_ANY} cetype_t;[] 
[158] Chapter 6 [159] [160] [161] [162] [163] [164] [165]
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@texttt fortran-compiler-oneapi-dev-guide-and-reference / top / compiler-refere
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@texttt mixed-language-programming / standard-tools-for-interoperability / bind
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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 [182] [183] Chapter 8 [184] [185] [186]
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tatic libR[] 
[187]
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nst char *);[] 
[188] [189] [190] [191] [192] [193]
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(Function and variable index) [196]
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[198] )
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page headings, tables, conditionals, indexing, sectioning, toc, environments,
defuns, macros, cross references, insertions,
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(/builddir/build/BUILD/R-4.2.2/doc/manual/R-exts.toc)
(/builddir/build/BUILD/R-4.2.2/doc/manual/R-exts.toc) (Acknowledgements)
(/builddir/build/BUILD/R-4.2.2/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] [15] [16] [17]
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[18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29]
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pp model/*/*.cpp model/*/*/*.cpp)[] 
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 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien
a07models.o $(SOURCES:.cpp=.o)[] 
[30] [31] [32]
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[][][]@smallrm Some changes are linked from [][]@smalltt https: / / isocpp . or
g / std / standing-documents /
[33]
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11PICFLAGS)")[] 
[34] [35] [36]
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 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin
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[37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51]
[52] [53]
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[54] [55] [56] [57] [58]
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 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19
 20 21)[] 
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[59]
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version 52.0[] 
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[60] [61] [62] [63] [64] [65] [66] [67]
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 []@texttt 'register' storage class specifier is deprecated and incompatible wi
th C++17[] 
[68] [69] [70] [71] [72] [73] Chapter 2 [74] [75] [76] [77] [78] [79] [80]
[81] [82] [83] [84] [85] [86]
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[]@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi
lename@texttt }[] @textrm and
[87]
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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
[88] [89] [90] [91] Chapter 3 [92] [93] [94] [95] [96] [97] [98] Chapter 4
[99] [100] [101] [102] [103] [104]
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[]@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by
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[105] [106] [107]
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[][][]@smallrm see [][]@smalltt https: / / llvm . org / devmtg / 2014-04 / PDFs
 / LightningTalks / EuroLLVM%202014%20--%20container%20overflow .
[108]
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[109]
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[110] [111]
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[112] [113] [114] [115] [116]
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 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to 
INTEGER(4)[] 
Chapter 5 [117] [118] [119] [120] [121] [122] [123] [124] [125] [126]
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 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de
riv, PACKAGE = "splines")[] 
[127] [128] [129] [130] [131] [132] [133]
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 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH)
" -lpackB[] 
[134] [135] [136] [137] [138] [139] [140] [141] [142] [143]
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[]@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated
3[] @textrm are fast ver-sions of R's
[144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155]
[156]
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[157]
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 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE
_ANY} cetype_t;[] 
[158] Chapter 6 [159] [160] [161] [162] [163] [164] [165]
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[]@textrm Passing a variable-length string from C to For-tran is trick-ier, but
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@texttt fortran-compiler-oneapi-dev-guide-and-reference / top / compiler-refere
nce /
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@texttt mixed-language-programming / standard-tools-for-interoperability / bind
 . html[][][]
[166] [167] [168] [169] [170] [171] [172] [173] [174] [175]
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[181]
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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 [182] [183] Chapter 8 [184] [185] [186]
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tatic libR[] 
[187]
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nst char *);[] 
[188] [189] [190] [191] [192] [193]
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tive in-stall and
[194] [195]
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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) [196] [197] [198] [199] [200] (Concept index)
[201] [202] [203] )
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r): fonts @textsl and @defsl have conflicting attributes; I will ignore the att
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sr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsltt10.pfb></usr/s
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(/builddir/build/BUILD/R-4.2.2/doc/manual/R-exts.toc)
(/builddir/build/BUILD/R-4.2.2/doc/manual/R-exts.toc) (Acknowledgements)
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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] [15] [16] [17]
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[18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29]
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pp model/*/*.cpp model/*/*/*.cpp)[] 
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a07models.o $(SOURCES:.cpp=.o)[] 
[30] [31] [32]
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g / std / standing-documents /
[33]
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[34] [35] [36]
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[37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51]
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PICFLAGS`[] 
[54] [55] [56] [57] [58]
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 20 21)[] 
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ersion")[] 
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= "."))[] 
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[59]
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version 52.0[] 
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[60] [61] [62] [63] [64] [65] [66] [67]
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 []@texttt 'register' storage class specifier is deprecated and incompatible wi
th C++17[] 
[68] [69] [70] [71] [72] [73] Chapter 2 [74] [75] [76] [77] [78] [79] [80]
[81] [82] [83] [84] [85] [86]
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[]@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi
lename@texttt }[] @textrm and
[87]
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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
[88] [89] [90] [91] Chapter 3 [92] [93] [94] [95] [96] [97] [98] Chapter 4
[99] [100] [101] [102] [103] [104]
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[]@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by
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[105] [106] [107]
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[][][]@smallrm see [][]@smalltt https: / / llvm . org / devmtg / 2014-04 / PDFs
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[108]
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[109]
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[110] [111]
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[112] [113] [114] [115] [116]
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Chapter 5 [117] [118] [119] [120] [121] [122] [123] [124] [125] [126]
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" -lpackB[] 
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[]@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated
3[] @textrm are fast ver-sions of R's
[144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155]
[156]
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_ANY} cetype_t;[] 
[158] Chapter 6 [159] [160] [161] [162] [163] [164] [165]
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@texttt mixed-language-programming / standard-tools-for-interoperability / bind
 . html[][][]
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[181]
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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 [182] [183] Chapter 8 [184] [185] [186]
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[188] [189] [190] [191] [192] [193]
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[194] [195]
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(Function and variable index) [196] [197] [198] [199] [200] (Concept index)
[201] [202] [203] )
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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-4.2.2/doc/manual/images/hist.pdf> [34] </builddir/build/BU
ILD/R-4.2.2/doc/manual/images/ecdf.pdf> </builddir/build/BUILD/R-4.2.2/doc/manu
al/images/QQ.pdf> [35] [36] </builddir/build/BUILD/R-4.2.2/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-4.2.2/doc/manual/R-intro.toc) (Preface)
(/builddir/build/BUILD/R-4.2.2/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-4.2.2/doc/manual/images/hist.pdf> [34] </builddir/build/BU
ILD/R-4.2.2/doc/manual/images/ecdf.pdf> </builddir/build/BUILD/R-4.2.2/doc/manu
al/images/QQ.pdf> [35] [36] </builddir/build/BUILD/R-4.2.2/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] [94] [95] Appendix E [96] [97]
Appendix F [98] [99] )
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(/builddir/build/BUILD/R-4.2.2/doc/manual/R-intro.toc) (Preface)
(/builddir/build/BUILD/R-4.2.2/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
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ILD/R-4.2.2/doc/manual/images/ecdf.pdf> </builddir/build/BUILD/R-4.2.2/doc/manu
al/images/QQ.pdf> [35] [36] </builddir/build/BUILD/R-4.2.2/doc/manual/images/ic
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[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] [94] [95] Appendix E [96] [97]
Appendix F [98] [99] )
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[1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16]
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atrix 1.2-6[] 
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ics with methods[] 
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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
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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]
Underfull \hbox (badness 10000) in paragraph at lines 3989--3994
 @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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are/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmti10.pfb></usr/share/te
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[1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16]
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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[] 
Overfull \hbox (137.03487pt too wide) in paragraph at lines 1504--1504
 [] @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 3768--3777
@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 3989--3994
 @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] [66] (Concept index) [67] [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
lic/amsfonts/cm/cmmi12.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/am
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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 1503--1503
 [] @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 1504--1504
 [] @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]
Underfull \hbox (badness 10000) in paragraph at lines 3768--3777
@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 3768--3777
@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 3989--3994
 @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] [66] (Concept index) [67] [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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sr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr9.pfb></usr/share
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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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e1/public/amsfonts/cm/cmtt10.pfb></usr/share/texlive/texmf-dist/fonts/type1/pub
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TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi
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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]
No file R-lang.vrs.
(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
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</usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy10.pfb></usr/
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(/builddir/build/BUILD/R-4.2.2/doc/manual/R-lang.toc) Chapter 1
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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]
Underfull \hbox (badness 10000) in paragraph at lines 4353--4355
[]@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] [52]
(Concept Index) [53] 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
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exmf-dist/fonts/map/pdftex/updmap/pdftex.map}] [2]
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(/builddir/build/BUILD/R-4.2.2/doc/manual/R-lang.toc) Chapter 1
(/builddir/build/BUILD/R-4.2.2/doc/manual/R-lang.aux)
Writing index file R-lang.cp
Chapter 2 [1] [2]
Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294
 @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]
Underfull \hbox (badness 10000) in paragraph at lines 4353--4355
[]@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] [52]
(Concept Index) [53] 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
/texmf-dist/fonts/type1/public/amsfonts/cm/cmti10.pfb></usr/share/texlive/texmf
-dist/fonts/type1/public/amsfonts/cm/cmtt10.pfb></usr/share/texlive/texmf-dist/
fonts/type1/public/amsfonts/cm/cmtt9.pfb>
Output written on R-lang.pdf (60 pages, 375443 bytes).
Transcript written on R-lang.log.
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+ mv doc/FAQ.utf8 doc/FAQ
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Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.ALGRjJ
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64
++ dirname /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64
+ cd R-4.2.2
+ make DESTDIR=/builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64 install install-info
mkdir -p -- /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R
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installing doc ...
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gcc -I. -I../../src/include -I../../src/include  -I/usr/local/include -DHAVE_CONFIG_H    -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -DR_HOME='"/usr/lib64/R"' \
  -o Rscript ./Rscript.c
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mkdir -p -- /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/info
/usr/bin/install -c -m 644 "./dir" "/builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/info"
installing R info pages ...
updating '/usr/share/info/dir' ...
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+ make DESTDIR=/builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64 install-pdf
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installing R manuals in PDF format ...
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+ rm -f /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/info/dir
+ rm -f /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/info/dir.old
+ mkdir -p /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/doc/R
+ install -p CAPABILITIES /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/doc/R
+ cd src/nmath/standalone
+ make install DESTDIR=/builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64
make[1]: Entering directory '/builddir/build/BUILD/R-4.2.2/src/include'
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+ mkdir -p /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/etc/ld.so.conf.d
+ echo /usr/lib64/R/lib
+ mkdir -p /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/R/library
+ touch -r README /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/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-4.2.2-1.el8.aarch64/usr/bin/R
+ sed -i 's|\..\/\..|/usr/lib64/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/doc/R/html/packages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/KernSmooth/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/KernSmooth/html/bkde.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/KernSmooth/html/bkde2D.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/KernSmooth/html/bkfe.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/KernSmooth/html/dpih.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/KernSmooth/html/dpik.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/KernSmooth/html/dpill.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/KernSmooth/html/locpoly.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Aids2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Animals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Boston.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Cars93.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Cushings.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/DDT.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/GAGurine.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Insurance.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/MASS-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Melanoma.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Null.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/OME.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Pima.tr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Rabbit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Rubber.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/SP500.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Sitka.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Sitka89.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Skye.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/Traffic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/UScereal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/UScrime.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/VA.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/abbey.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/accdeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/addterm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/anorexia.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/anova.negbin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/area.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/bacteria.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/bandwidth.nrd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/bcv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/beav1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/beav2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/biopsy.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/birthwt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/boxcox.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/cabbages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/caith.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/cats.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/cement.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/chem.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/con2tr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/confint.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/contr.sdif.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/coop.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/corresp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/cov.rob.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/cov.trob.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/cpus.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/crabs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/deaths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/denumerate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/dose.p.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/drivers.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/dropterm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/eagles.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/epil.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/eqscplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/farms.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/fgl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/fitdistr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/forbes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/fractions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/galaxies.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/gamma.dispersion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/gamma.shape.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/gehan.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/genotype.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/geyser.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/gilgais.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/ginv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/glm.convert.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/glm.nb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/glmmPQL.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/hills.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/hist.scott.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/housing.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/huber.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/hubers.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/immer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/isoMDS.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/kde2d.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/lda.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/ldahist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/leuk.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/lm.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/lm.ridge.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/loglm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/loglm1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/logtrans.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/lqs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/mammals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/mca.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/mcycle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/menarche.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/michelson.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/minn38.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/motors.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/muscle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/mvrnorm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/negative.binomial.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/newcomb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/nlschools.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/npk.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/npr1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/oats.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/painters.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/pairs.lda.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/parcoord.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/petrol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/phones.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/plot.lda.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/plot.mca.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/plot.profile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/polr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/predict.glmmPQL.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/predict.lda.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/predict.lqs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/predict.mca.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/predict.qda.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/profile.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/qda.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/quine.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/rational.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/renumerate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/rlm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/rms.curv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/rnegbin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/road.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/rotifer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/sammon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/ships.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/shoes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/shrimp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/shuttle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/snails.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/stdres.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/steam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/stepAIC.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/stormer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/studres.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/summary.loglm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/summary.negbin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/summary.rlm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/survey.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/synth.tr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/theta.md.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/topo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/truehist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/ucv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/waders.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/whiteside.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/width.SJ.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/write.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/MASS/html/wtloss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/BunchKaufman-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/CAex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/CHMfactor-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Cholesky-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Cholesky.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/CsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Diagonal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Hilbert.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/KNex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/KhatriRao.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/LU-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Matrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/MatrixClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/MatrixFactorization-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/RsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Schur-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Schur.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/SparseM-conv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Subassign-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/TsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/USCounties.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/Xtrct-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/abIndex-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/abIseq.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/all-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/all.equal-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/atomicVector-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/band.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/bandSparse.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/bdiag.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/boolean-matprod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/cBind.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/chol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/chol2inv-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/colSums.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/compMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/condest.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/ddenseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/ddiMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/denseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dgCMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dgRMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dgTMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dgeMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/diagU2N.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/diagonalMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dmperm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dpoMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/drop0.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dsCMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dsRMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dsparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dsyMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dtCMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dtRMatrix-class-def.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dtpMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/dtrMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/expand.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/expm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/externalFormats.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/facmul.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/forceSymmetric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/formatSparseM.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/generalMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/graph2T.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/image-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/indMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/index-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/invPerm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/is.na-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/is.null.DN.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/isSymmetric-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/isTriangular.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/kronecker-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/ldenseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/ldiMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/lgeMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/lsparseMatrix-classes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/lsyMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/ltrMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/lu.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/mat2triplet.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/matrix-products.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/nMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/ndenseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/nearPD.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/ngeMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/nnzero.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/norm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/nsparseMatrix-classes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/nsyMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/ntrMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/number-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/pMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/packedMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/printSpMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/qr-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/rankMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/rcond.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/rep2abI.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/replValue-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/rleDiff-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/rsparsematrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/solve-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/spMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/sparse.model.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/sparseLU-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/sparseMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/sparseMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/sparseQR-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/sparseVector-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/sparseVector.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/symmetricMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/symmpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/triangularMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/uniqTsparse.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/unpack.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/unpackedMatrix-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/unused-classes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/updown.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/Matrix/html/wrld_1deg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Arithmetic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/AsIs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Bessel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/CallExternal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Colon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Comparison.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Constants.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Cstack_info.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/DateTimeClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Dates.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Encoding.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/EnvVar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Extract.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Extract.factor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Extract.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Extremes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Foreign-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Foreign.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Hyperbolic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ISOdatetime.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/InternalMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/La_library.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/La_version.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Last.value.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Log.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Logic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/LongVectors.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/MathFun.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Memory-limits.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Memory.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/NA.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/NULL.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/NumericConstants.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Ops.Date.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Paren.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Platform.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Primitive.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Quotes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Random-user.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Random.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/RdUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Recall.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Reserved.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Rhome.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Round.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/S3method.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Signals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Special.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/StackOverflows.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Startup.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Syntax.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.getenv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.getpid.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.glob.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.info.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.localeconv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.readlink.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.setFileTime.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.setenv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.sleep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.time.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Sys.which.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Trig.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/UTF8filepaths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/UseMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Vectorize.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/Version.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/abbreviate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/agrep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/all.equal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/all.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/allnames.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/any.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/aperm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/append.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/apply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/args.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/array.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/as.Date.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/as.POSIXlt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/as.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/as.environment.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/as.function.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/asplit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/assign.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/assignOps.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/attach.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/attr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/attributes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/autoload.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/backsolve.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/base-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/base-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/base-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/base-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/basename.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/bincode.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/bindenv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/bitwise.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/body.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/bquote.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/browser.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/browserText.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/builtins.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/by.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/c.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/call.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/callCC.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/capabilities.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/cat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/cbind.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/char.expand.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/character.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/charmatch.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/chartr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/chkDots.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/chol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/chol2inv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/col.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/colSums.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/colnames.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/commandArgs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/comment.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/complex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/conditions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/conflicts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/connections.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/contributors.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/copyright.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/crossprod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/cumsum.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/curlGetHeaders.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/cut.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/cut.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/data.class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/data.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dataframeHelpers.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/date.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dcf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/debug.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/delayedAssign.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/deparse.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/deparseOpts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/det.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/detach.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dev.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/diag.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/diff.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/difftime.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dim.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dimnames.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/do.call.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dontCheck.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dots.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/double.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dput.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/drop.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/droplevels.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dump.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/duplicated.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/dynload.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/eapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/eigen.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/encodeString.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/environment.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/eval.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/exists.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/expand.grid.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/expression.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/extSoftVersion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/factor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/file.access.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/file.choose.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/file.info.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/file.path.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/file.show.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/files.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/files2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/find.package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/findInterval.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/force.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/forceAndCall.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/formals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/format.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/format.info.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/format.pval.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/formatDL.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/formatc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/function.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/funprog.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/gc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/gc.time.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/gctorture.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/get.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/getCallingDLL.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/getDLLRegisteredRoutines.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/getLoadedDLLs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/getNativeSymbolInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/gettext.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/getwd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/gl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/grep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/grepRaw.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/groupGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/grouping.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/gzcon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/hexmode.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/iconv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/icuSetCollate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/identical.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/identity.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ifelse.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/integer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/interaction.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/interactive.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/invisible.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/is.finite.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/is.function.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/is.language.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/is.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/is.recursive.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/is.single.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/is.unsorted.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/isR.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/isS4.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/isSymmetric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/jitter.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/kappa.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/kronecker.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/l10n_info.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/labels.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/lapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/lazyload.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/length.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/lengths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/levels.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/libPaths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/libcurlVersion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/library.dynam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/library.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/license.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/list.files.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/list.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/list2DF.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/list2env.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/load.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/locales.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/logical.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/lower.tri.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/make.names.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/make.unique.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/mapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/marginSums.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/mat.or.vec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/match.arg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/match.call.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/match.fun.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/match.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/matmult.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/maxCol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/mean.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/memCompress.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/memlimits.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/memory.profile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/merge.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/message.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/missing.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/mode.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/mtfrm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/name.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/names.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/nargs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/nchar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/nlevels.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/noquote.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/norm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/normalizePath.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/notyet.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/nrow.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ns-dblcolon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ns-hooks.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ns-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ns-load.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ns-reflect.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/ns-topenv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/numeric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/numeric_version.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/octmode.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/on.exit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/options.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/order.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/outer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/parse.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/paste.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/path.expand.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/pcre_config.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/pipeOp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/plot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/pmatch.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/polyroot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/pos.to.env.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/pretty.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/print.dataframe.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/print.default.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/print.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/prmatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/proc.time.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/prod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/proportions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/pushBack.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/qr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/qraux.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/quit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/range.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rank.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/raw.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rawConnection.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rawConversion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/readBin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/readChar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/readLines.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/readRDS.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/readRenviron.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/readline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/reg.finalizer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/regex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/regmatches.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/replace.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rev.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/round.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/row.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/row.names.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/rowsum.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sQuote.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sample.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/save.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/scale.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/scan.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/search.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/seek.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/seq.Date.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/seq.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/seq.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sequence.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/serialize.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/setTimeLimit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sets.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/shQuote.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/showConnections.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sign.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sink.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/slice.index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/slotOp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/socketSelect.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/solve.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sort.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/source.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/split.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sprintf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/srcfile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/standardGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/startsWith.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/stop.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/stopifnot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/strptime.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/strrep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/strsplit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/strtoi.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/strtrim.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/structure.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/strwrap.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/subset.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/substitute.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/substr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sum.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/summary.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/svd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sweep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/switch.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sys.parent.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/sys.source.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/system.file.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/system.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/system.time.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/system2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/t.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/table.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/tabulate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/tapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/taskCallback.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/taskCallbackManager.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/taskCallbackNames.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/tempfile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/textconnections.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/tilde.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/timezones.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/toString.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/trace.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/traceback.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/tracemem.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/transform.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/trimws.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/try.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/typeof.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/unique.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/unlink.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/unlist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/unname.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/userhooks.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/utf8Conversion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/validUTF8.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/vector.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/warning.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/warnings.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/weekday.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/which.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/which.min.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/with.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/withVisible.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/write.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/writeLines.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/xtfrm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/zMachine.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/zScript.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/zapsmall.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/zpackages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/base/html/zutils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/EEF.profile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/Imp.Estimates.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/abc.ci.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/acme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/aids.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/aircondit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/amis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/aml.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/beaver.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/bigcity.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/boot-practicals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/boot.array.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/boot.ci.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/boot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/brambles.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/breslow.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/calcium.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/cane.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/capability.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/catsM.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/cav.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/cd4.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/cd4.nested.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/censboot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/channing.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/claridge.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/cloth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/co.transfer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/coal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/corr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/cum3.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/cv.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/darwin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/dogs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/downs.bc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/ducks.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/empinf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/envelope.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/exp.tilt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/fir.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/freq.array.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/frets.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/glm.diag.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/glm.diag.plots.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/gravity.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/hirose.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/imp.weights.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/inv.logit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/islay.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/jack.after.boot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/k3.linear.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/linear.approx.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/lines.saddle.distn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/logit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/manaus.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/melanoma.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/motor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/neuro.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/nitrofen.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/nodal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/norm.ci.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/nuclear.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/paulsen.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/plot.boot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/poisons.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/polar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/print.boot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/print.bootci.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/print.saddle.distn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/print.simplex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/remission.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/saddle.distn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/saddle.distn.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/saddle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/salinity.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/simplex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/simplex.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/smooth.f.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/sunspot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/survival.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/tau.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/tilt.boot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/tsboot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/tuna.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/urine.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/var.linear.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/boot/html/wool.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/SOM.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/batchSOM.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/condense.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/knn.cv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/knn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/knn1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/lvq1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/lvq2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/lvq3.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/lvqinit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/lvqtest.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/multiedit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/olvq1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/reduce.nn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/class/html/somgrid.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/agnes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/agnes.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/agriculture.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/animals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/bannerplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/chorSub.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/clara.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/clara.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/clusGap.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/clusplot.default.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/clusplot.partition.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/cluster-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/coef.hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/daisy.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/diana.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/dissimilarity.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/ellipsoidhull.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/fanny.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/fanny.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/flower.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/lower.to.upper.tri.inds.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/medoids.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/mona.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/mona.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/pam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/pam.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/partition.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/plantTraits.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/plot.agnes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/plot.diana.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/plot.mona.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/plot.partition.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/pltree.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/pluton.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/predict.ellipsoid.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/print.agnes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/print.clara.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/print.diana.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/print.dissimilarity.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/print.fanny.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/print.mona.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/print.pam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/ruspini.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/silhouette.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/sizeDiss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/summary.agnes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/summary.clara.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/summary.diana.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/summary.mona.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/summary.pam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/twins.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/volume.ellipsoid.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/votes.repub.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/cluster/html/xclara.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/codetools/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/codetools/html/checkUsage.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/codetools/html/codetools.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/codetools/html/findGlobals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/codetools/html/showTree.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/compiler/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/compiler/html/compile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/AirPassengers.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/BJsales.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/BOD.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/ChickWeight.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/DNase.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/EuStockMarkets.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Formaldehyde.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/HairEyeColor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Harman23.cor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Harman74.cor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Indometh.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/InsectSprays.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/JohnsonJohnson.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/LakeHuron.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/LifeCycleSavings.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Loblolly.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Nile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Orange.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/OrchardSprays.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/PlantGrowth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Puromycin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Theoph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/Titanic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/ToothGrowth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/UCBAdmissions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/UKDriverDeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/UKLungDeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/UKgas.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/USAccDeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/USArrests.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/USJudgeRatings.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/USPersonalExpenditure.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/VADeaths.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/WWWusage.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/WorldPhones.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/ability.cov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/airmiles.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/airquality.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/anscombe.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/attenu.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/attitude.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/austres.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/beavers.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/cars.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/chickwts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/co2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/crimtab.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/datasets-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/discoveries.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/esoph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/euro.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/eurodist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/faithful.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/freeny.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/infert.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/iris.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/islands.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/lh.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/longley.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/lynx.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/morley.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/mtcars.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/nhtemp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/nottem.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/npk.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/occupationalStatus.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/precip.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/presidents.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/pressure.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/quakes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/randu.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/rivers.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/rock.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/sleep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/stackloss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/state.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/sunspot.month.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/sunspot.year.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/sunspots.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/swiss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/treering.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/trees.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/uspop.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/volcano.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/warpbreaks.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/women.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/datasets/html/zCO2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/lookup.xport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.S.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.arff.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.dbf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.dta.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.epiinfo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.mtp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.octave.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.spss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.ssd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.systat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/read.xport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/write.arff.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/write.dbf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/write.dta.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/foreign/html/write.foreign.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/Devices.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/Hershey.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/Japanese.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/Type1Font.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/adjustcolor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/as.graphicsAnnot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/as.raster.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/axisTicks.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/boxplot.stats.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/bringToTop.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/cairo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/cairoSymbolFont.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/check.options.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/chull.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/cm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/col2rgb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/colorRamp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/colors.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/contourLines.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/convertColor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/densCols.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/dev.capabilities.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/dev.capture.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/dev.flush.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/dev.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/dev.interactive.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/dev.size.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/dev2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/dev2bitmap.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/devAskNewPage.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/embedFonts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/extendrange.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/getGraphicsEvent.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/grDevices-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/grSoftVersion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/gray.colors.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/gray.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/hcl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/hsv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/make.rgb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/msgWindow.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/n2mfrow.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/nclass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/palette.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/palettes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/pdf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/pdf.options.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/pictex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/plotmath.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/png.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/postscript.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/postscriptFonts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/pretty.Date.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/ps.options.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/quartz.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/quartzFonts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/recordGraphics.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/recordplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/rgb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/rgb2hsv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/savePlot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/trans3d.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/windows.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/windows.options.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/windowsFonts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/x11.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/x11Fonts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/xfig.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/xy.coords.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/xyTable.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grDevices/html/xyz.coords.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/abline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/arrows.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/assocplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/axTicks.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/axis.POSIXct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/axis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/barplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/box.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/boxplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/boxplot.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/bxp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/cdplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/clip.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/contour.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/convertXY.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/coplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/curve.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/dotchart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/filled.contour.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/fourfoldplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/graphics-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/graphics-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/grid.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/hist.POSIXt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/hist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/identify.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/image.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/layout.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/legend.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/lines.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/locator.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/matplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/mosaicplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/mtext.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/pairs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/panel.smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/par.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/persp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/pie.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.dataframe.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.default.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.design.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.factor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.raster.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.table.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.window.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plot.xy.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/plothistogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/points.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/polygon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/polypath.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/rasterImage.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/rect.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/rug.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/screen.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/segments.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/smoothScatter.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/spineplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/stars.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/stem.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/stripchart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/strwidth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/sunflowerplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/symbols.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/text.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/title.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/units.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/xspline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/graphics/html/zAxis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/Grid.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/absolute.size.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/arrow.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/as.mask.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/calcStringMetric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/current.viewport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/dataViewport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/depth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/deviceLoc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/drawDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/editDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/editViewport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/explode.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/gEdit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/gPath.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/getNames.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/gpar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.DLapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.add.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.bezier.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.cap.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.circle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.clip.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.convert.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.copy.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.curve.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.delay.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.display.list.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.draw.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.edit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.force.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.function.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.get.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.grab.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.grep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.grill.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.grob.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.group.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.layout.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.lines.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.locator.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.ls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.move.to.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.newpage.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.null.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.pack.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.path.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.place.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.plot.and.legend.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.points.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.polygon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.pretty.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.raster.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.record.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.rect.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.refresh.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.remove.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.reorder.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.roundrect.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.segments.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.set.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.show.layout.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.show.viewport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.stroke.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.text.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.xaxis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.xspline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grid.yaxis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/gridCoords.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grobCoords.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grobName.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grobWidth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/grobX.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/legendGrob.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/makeContent.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/patterns.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/plotViewport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/resolveRasterSize.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/showGrob.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/showViewport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/stringWidth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/unit.c.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/unit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/unit.length.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/unit.pmin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/unit.rep.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/unitType.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/valid.just.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/validDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/viewport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/viewportTransform.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/viewports.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/vpPath.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/widthDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/xDetails.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/grid/html/xsplinePoints.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/Lattice.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/Rows.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/USMortality.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/axis.default.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/banking.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/barchart.table.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/barley.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/cloud.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/draw.colorkey.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/draw.key.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/environmental.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/ethanol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/histogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/interaction.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/lattice.options.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/latticeParseFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/level.colors.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/levelplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/llines.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/lset.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/make.groups.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/melanoma.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/oneway.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/packet.panel.default.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.axis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.barchart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.bwplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.cloud.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.densityplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.dotplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.functions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.histogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.levelplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.loess.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.number.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.pairs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.parallel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.qqmath.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.qqmathline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.smoothScatter.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.spline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.stripplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.superpose.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.violin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/panel.xyplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/prepanel.default.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/prepanel.functions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/print.trellis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/qq.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/qqmath.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/rfs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/shingles.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/simpleKey.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/simpleTheme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/singer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/splom.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/strip.default.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/tmd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/trellis.device.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/trellis.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/trellis.par.get.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/update.trellis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/utilities.3d.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/xyplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/lattice/html/xyplot.ts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/BasicClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/Classes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/Classes_Details.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/Documentation.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/EmptyMethodsList-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/EnvironmentClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/GenericFunctions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/Introduction.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/LanguageClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/LinearMethodsList-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/MethodDefinition-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/MethodSupport.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/MethodWithNext-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/Methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/MethodsList-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/MethodsList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/Methods_Details.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/Methods_for_Nongenerics.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/Methods_for_S3.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/NextMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/ObjectsWithPackage-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/RClassUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/RMethodUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/S3Part.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/S4groupGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/SClassExtension-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/StructureClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/TraceClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/as.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/callGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/canCoerce.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/cbind2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/className.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/classRepresentation-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/classesToAM.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/dotsMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/evalSource.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/findClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/findMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/fixPrevious.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/genericFunction-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/getClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/getMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/getPackageName.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/hasArg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/implicitGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/inheritedSlotNames.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/initialize-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/is.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/isSealedMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/languageEl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/localRefClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/method.skeleton.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/methodUtilities.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/methods-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/methods-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/methods-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/new.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/nonStructure-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/promptClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/promptMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/refClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/removeMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/representation.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/selectSuperClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setAs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setClassUnion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setGroupGeneric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setIs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setLoadActions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setMethod.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setOldClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/setSClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/show.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/showMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/signature-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/slot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/stdRefClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/substituteDirect.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/testInheritedMethods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/validObject.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/methods/html/zBasicFunsList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Beta.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/FFdes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Predict.matrix.cr.smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Predict.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Predict.matrix.soap.film.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Rrank.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Sl.initial.repara.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Sl.repara.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Sl.setup.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/Tweedie.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/XWXd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/anova.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/bam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/bam.update.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/bandchol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/blas.thread.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/bug.reports.mgcv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/cSplineDes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/chol.down.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/choose.k.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/cnorm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/columb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/concurvity.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/coxpht.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/dDeta.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/dpnorm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/exclude.too.far.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/extract.lme.cov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/factor.smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/family.mgcv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/fix.family.link.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/fixDependence.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/formXtViX.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/formula.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/fs.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/full.score.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.check.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.convergence.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.fit3.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.fit5.post.proc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.mh.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.models.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.outer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.reparam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.scale.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.selection.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.side.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam.vcomp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gam2objective.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gamObject.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gamSim.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gamlss.etamu.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gamlss.gH.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gamm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gammals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gaulss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/get.var.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gevlss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/ginla.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/gumbls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/identifiability.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/in.out.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/inSide.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/influence.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/initial.sp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/interpret.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/jagam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/k.check.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/ldTweedie.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/ldetS.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/linear.functional.terms.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/logLik.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/ls.size.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/magic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/magic.post.proc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/mgcv-FAQ.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/mgcv-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/mgcv-parallel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/mini.roots.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/missing.data.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/model.matrix.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/mono.con.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/mroot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/multinom.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/mvn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/negbin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/new.name.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/notExp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/notExp2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/null.space.dimension.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/ocat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/one.se.rule.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/pcls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/pdIdnot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/pdTens.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/pen.edf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/place.knots.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/plot.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/polys.plot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/predict.bam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/predict.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/print.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/psum.chisq.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/qq.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/rTweedie.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/random.effects.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/residuals.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/rig.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/rmvn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/s.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/scat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/sdiag.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/shash.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/single.index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/slanczos.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.ad.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.bs.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.cr.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.ds.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.fs.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.gp.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.mrf.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.ps.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.re.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.so.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.sos.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.sz.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.t2.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.tensor.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.construct.tp.smooth.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.info.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth.terms.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smooth2random.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/smoothCon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/sp.vcov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/spasm.construct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/step.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/summary.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/t2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/te.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/tensor.prod.model.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/totalPenaltySpace.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/trichol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/trind.generator.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/twlss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/uniquecombs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/vcov.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/vis.gam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/ziP.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/html/ziplss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/ACF.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/ACF.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/ACF.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Alfalfa.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Assay.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/BodyWeight.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Cefamandole.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Coef.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Covariate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Covariate.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Dialyzer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Dim.corSpatial.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Dim.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Dim.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Dim.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Earthquake.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Extract.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Fatigue.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Gasoline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Glucose.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Glucose2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Gun.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/IGF.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Initialize.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Initialize.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Initialize.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Initialize.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Initialize.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Initialize.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/LDEsysMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Machines.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/MathAchSchool.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/MathAchieve.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Matrix.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Matrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Meat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Milk.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Muscle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Names.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Names.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Names.pdBlocked.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Names.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Names.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Nitrendipene.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Oats.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Orthodont.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Ovary.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Oxboys.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Oxide.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/PBG.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Phenobarb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Pixel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Quinidine.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Rail.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/RatPupWeight.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Relaxin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Remifentanil.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Soybean.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Spruce.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Tetracycline1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Tetracycline2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/VarCorr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.corExp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.corGaus.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.corLin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.corRatio.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.corSpatial.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.corSpher.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.default.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Variogram.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Wafer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Wheat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/Wheat2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/allCoef.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/anova.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/anova.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/as.matrix.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/as.matrix.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/as.matrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/asOneFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/asTable.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/augPred.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/balancedGrouped.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/bdf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/coef.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/coef.gnls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/coef.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/coef.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/coef.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/coef.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/coef.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/coef.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/collapse.groupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/collapse.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/compareFits.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/comparePred.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corAR1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corARMA.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corCAR1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corCompSymm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corExp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corFactor.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corFactor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corGaus.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corLin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corMatrix.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corMatrix.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corMatrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corNatural.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corRatio.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corSpatial.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corSpher.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/corSymm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/ergoStool.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fdHess.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fitted.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fitted.gnlsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fitted.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fitted.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fitted.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fitted.nlmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fixed.effects.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/fixef.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/formula.pdBlocked.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/formula.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/formula.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/gapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getCovariate.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getCovariate.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getCovariate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getCovariate.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getCovariateFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getData.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getData.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getData.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getGroups.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getGroups.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getGroups.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getGroups.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getGroups.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getGroups.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getGroups.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getGroupsFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getResponse.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getResponseFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/getVarCov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/gls-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/glsControl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/glsObject.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/gnls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/gnlsControl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/gnlsObject.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/gnlsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/groupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/gsummary.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/intervals.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/intervals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/intervals.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/intervals.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/isBalanced.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/isInitialized.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/lmList.groupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/lme.groupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/lme.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/lmeControl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/lmeObject.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logDet.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logDet.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logDet.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logDet.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.gnls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.gnlsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/logLik.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/model.matrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/needUpdate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/needUpdate.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/nlme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/nlme.nlsList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/nlmeControl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/nlmeObject.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/nlmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/nlsList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/nlsList.selfStart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pairs.compareFits.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pairs.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pairs.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdBlocked.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdCompSymm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdConstruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdConstruct.pdBlocked.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdDiag.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdFactor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdFactor.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdIdent.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdLogChol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdMatrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdMatrix.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdNatural.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pdSymm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/phenoModel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.ACF.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.Variogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.augPred.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.compareFits.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.intervals.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.nffGroupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.nfnGroupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.nmGroupedData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.ranef.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/plot.ranef.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/pooledSD.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/predict.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/predict.gnls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/predict.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/predict.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/predict.nlme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/print.summary.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/print.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/qqnorm.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/qqnorm.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/quinModel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/random.effects.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/ranef.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/ranef.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/recalc.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/recalc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/recalc.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/recalc.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/recalc.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/residuals.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/residuals.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/residuals.gnlsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/residuals.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/residuals.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/residuals.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/residuals.nlmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/simulate.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/solve.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/solve.reStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/splitFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/summary.corStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/summary.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/summary.lmList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/summary.lme.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/summary.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/summary.nlsList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/summary.pdMat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/summary.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/update.modelStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/update.varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varComb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varConstPower.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varConstProp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varExp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varFixed.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varFunc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varIdent.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varPower.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varWeights.glsStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varWeights.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nlme/html/varWeights.lmeStruct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nnet/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nnet/html/class.ind.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nnet/html/multinom.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nnet/html/nnet.Hess.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nnet/html/nnet.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nnet/html/predict.nnet.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/nnet/html/which.is.max.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/RngStream.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/children.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/clusterApply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/detectCores.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/makeCluster.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/mcaffinity.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/mcfork.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/mclapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/mcparallel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/parallel-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/pvec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/parallel/html/splitIndices.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/car.test.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/car90.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/cu.summary.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/kyphosis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/labels.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/meanvar.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/na.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/path.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/plot.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/plotcp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/post.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/predict.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/print.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/printcp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/prune.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/residuals.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/rpart-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/rpart.control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/rpart.exp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/rpart.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/rsq.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/snip.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/solder.balance.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/stagec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/summary.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/text.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/rpart/html/xpred.rpart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/Kaver.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/Kenvl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/Kfn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/Psim.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/SSI.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/Strauss.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/anova.trls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/correlogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/expcov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/ppgetregion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/ppinit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/pplik.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/ppregion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/predict.trls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/prmat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/semat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/surf.gls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/surf.ls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/trls.influence.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/trmat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/spatial/html/variogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/asVector.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/backSpline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/bs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/interpSpline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/ns.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/periodicSpline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/polySpline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/predict.bSpline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/predict.bs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/splineDesign.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/splineKnots.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/splineOrder.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/splines-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/splines/html/xyVector.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/AIC.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ARMAacf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ARMAtoMA.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Beta.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Binomial.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Cauchy.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Chisquare.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Distributions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Exponential.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Fdist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/GammaDist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Geometric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/HoltWinters.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Hypergeometric.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/IQR.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/KalmanLike.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Logistic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Lognormal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Multinom.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/NLSstAsymptotic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/NLSstClosestX.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/NLSstLfAsymptote.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/NLSstRtAsymptote.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/NegBinomial.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Normal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Pair.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Poisson.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSD.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSasymp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSasympOff.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSasympOrig.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSbiexp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSfol.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSfpl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSgompertz.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSlogis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSmicmen.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SSweibull.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/SignRank.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Smirnov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/StructTS.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/TDist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Tukey.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/TukeyHSD.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Uniform.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Weibull.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/Wilcoxon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/acf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/acf2AR.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/add1.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/addmargins.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/aggregate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/alias.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/anova.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/anova.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/anova.lm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/anova.mlm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ansari.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/aov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/approxfun.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ar.ols.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/arima.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/arima.sim.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/arima0.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/as.hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/asOneSidedFormula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ave.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/bandwidth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/bartlett.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/binom.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/biplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/biplot.princomp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/birthday.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/box.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/cancor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/case.names.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/checkMFClasses.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/chisq.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/cmdscale.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/coef.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/complete.cases.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/confint.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/constrOptim.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/contrast.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/contrasts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/convolve.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/cophenetic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/cor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/cor.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/cov.wt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/cpgram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/cutree.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/decompose.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/delete.response.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/dendrapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/dendrogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/density.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/deriv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/deviance.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/df.residual.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/diffinv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/dist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/dummy.coef.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ecdf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/eff.aovlist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/effects.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/embed.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/expand.model.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/extractAIC.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/factanal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/factor.scope.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/family.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/fft.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/filter.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/fisher.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/fitted.values.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/fivenum.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/fligner.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/formula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/formula.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/friedman.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ftable.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ftable.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/getInitial.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/glm.control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/glm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/glm.summaries.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/heatmap.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/identify.hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/influence.measures.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/integrate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/interaction.plot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/is.empty.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/isoreg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/kernapply.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/kernel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/kmeans.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/kruskal.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ks.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ksmooth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/lag.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/lag.plot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/line.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/listof.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/lm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/lm.influence.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/lm.summaries.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/lmfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/loadings.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/loess.control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/loess.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/logLik.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/loglin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/lowess.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ls.diag.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ls.print.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/lsfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/mad.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/mahalanobis.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/make.link.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/makepredictcall.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/manova.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/mantelhaen.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/mauchly.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/mcnemar.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/median.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/medpolish.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/model.extract.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/model.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/model.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/model.tables.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/monthplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/mood.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/na.action.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/na.contiguous.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/na.fail.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/nafns.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/naprint.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/nextn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/nlm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/nlminb.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/nls.control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/nls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/nobs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/numericDeriv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/offset.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/oneway.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/optim.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/optimize.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/order.dendrogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/p.adjust.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/pairwise.prop.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/pairwise.t.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/pairwise.table.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/pairwise.wilcox.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.HoltWinters.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.acf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.density.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.isoreg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.lm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.ppr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.profile.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.spec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.stepfun.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/plot.ts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/poisson.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/poly.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/power.anova.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/power.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/power.prop.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/power.t.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/pp.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ppoints.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ppr.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/prcomp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/predict.HoltWinters.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/predict.arima.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/predict.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/predict.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/predict.lm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/predict.loess.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/predict.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/predict.smooth.spline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/preplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/princomp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/print.power.htest.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/print.ts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/printCoefmat.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/profile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/profile.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/proj.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/prop.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/prop.trend.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/qqnorm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/quade.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/quantile.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/r2dtable.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/rWishart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/read.ftable.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/rect.hclust.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/relevel.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/reorder.dendrogram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/reorder.factor.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/replications.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/reshape.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/residuals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/runmed.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/scatter.smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/screeplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/sd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/se.contrast.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/selfStart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/setNames.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/shapiro.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/sigma.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/simulate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/smooth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/smooth.spline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/smoothEnds.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/sortedXyData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/spec.ar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/spec.pgram.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/spec.taper.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/spectrum.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/splinefun.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/start.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/stat.anova.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/stats-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/stats-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/stats-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/step.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/stepfun.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/stl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/stlmethods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/summary.aov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/summary.glm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/summary.lm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/summary.manova.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/summary.nls.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/summary.princomp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/supsmu.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/symnum.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/t.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/termplot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/terms.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/terms.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/terms.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/time.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/toeplitz.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ts-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ts.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ts.plot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/ts.union.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/tsSmooth.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/tsdiag.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/tsp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/uniroot.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/update.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/update.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/var.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/varimax.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/vcov.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/weighted.mean.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/weighted.residuals.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/weights.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/wilcox.test.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/window.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/xtabs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats/html/zC.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/coef-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/confint-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/logLik-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/mle-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/mle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/plot-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/profile-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/profile.mle-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/show-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/stats4-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/summary-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/summary.mle-class.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/update-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/stats4/html/vcov-methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/Surv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/Surv2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/Surv2data.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/Survmethods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/aareg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/aeqSurv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/aggregate.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/agreg.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/aml.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/anova.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/attrassign.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/basehaz.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/bladder.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/blogit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/cch.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/cgd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/cgd0.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/cipoisson.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/clogit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/cluster.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/colon.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/concordance.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/concordancefit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/cox.zph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/coxph.control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/coxph.detail.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/coxph.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/coxph.wtest.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/coxphms.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/coxsurv.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/diabetic.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/dsurvreg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/finegray.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/flchain.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/frailty.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/gbsg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/heart.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/is.ratetable.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/kidney.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/levels.Surv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/lines.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/logLik.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/logan.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/lung.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/mgus.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/mgus2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/model.frame.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/model.matrix.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/myeloid.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/myeloma.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/nafld.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/neardate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/nsk.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/nwtco.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/ovarian.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/pbc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/pbcseq.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/plot.aareg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/plot.cox.zph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/plot.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/predict.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/predict.survreg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/print.aareg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/print.summary.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/print.summary.survexp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/print.summary.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/print.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/pseudo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/pspline.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/pyears.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/quantile.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/ratetable.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/ratetableDate.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/rats.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/rats2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/reliability.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/residuals.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/residuals.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/residuals.survreg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/retinopathy.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/rhDNase.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/ridge.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/rotterdam.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/royston.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/rttright.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/solder.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/stanford2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/statefig.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/strata.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/summary.aareg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/summary.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/summary.pyears.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/summary.survexp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/summary.survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survSplit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survcheck.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survdiff.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survexp.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survexp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survexp.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survexp.us.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survfit.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survfit.formula.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survfit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survfit.matrix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survfit.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survfit0.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survfitcoxph.fit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survival-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survival-internal.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survobrien.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survreg.control.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survreg.distributions.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survreg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survreg.object.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/survregDtest.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/tcut.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/tmerge.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/tobin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/transplant.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/udca.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/untangle.specials.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/uspop2.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/vcov.coxph.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/veteran.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/xtfrm.Surv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/yates.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/survival/html/yates_setup.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/TclInterface.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/TkCommands.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/TkWidgetcmds.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/TkWidgets.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tclServiceMode.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tcltk-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tcltk-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tkProgressBar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tkStartGUI.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tk_choose.dir.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tk_choose.files.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tk_messageBox.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tk_select.list.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tcltk/html/tkpager.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/CRANtools.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/HTMLheader.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/HTMLlinks.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/QC.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/Rcmd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/Rd2HTML.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/Rd2txt_options.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/RdTextFilter.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/Rdiff.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/Rdindex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/Rdutils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/SweaveTeXFilter.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/add_datalist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/assertCondition.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/bibstyle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/buildVignette.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/buildVignettes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/charsets.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/checkFF.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/checkMD5sums.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/checkPoFiles.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/checkRd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/checkRdaFiles.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/checkTnF.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/checkVignettes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/check_packages_in_dir.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/codoc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/compactPDF.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/delimMatch.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/dependsOnPkgs.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/encoded.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/fileutils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/find_gs_cmd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/getVignetteInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/loadRdMacros.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/makeLazyLoading.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/make_translations_pkg.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/makevars.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/md5sum.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/package_dependencies.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/package_native_routine_registration_skeleton.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/parseLatex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/parse_Rd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/print.via.format.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/pskill.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/psnice.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/read.00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/showNonASCII.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/startDynamicHelp.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/testInstalledPackage.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/texi2dvi.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/toHTML.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/toRd.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/toTitleCase.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/tools-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/tools-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/tools-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/undoc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/updatePACKAGES.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/update_pkg_po.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/userdir.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/vignetteEngine.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/vignetteInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/writePACKAGES.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/tools/html/xgettext.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/00Index.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/BATCH.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/COMPILE.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/DLL.version.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/INSTALL.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/LINK.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/PkgUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/Question.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/REMOVE.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/RHOME.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/RShowDoc.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/RSiteSearch.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/Rconsole.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/Rprof.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/Rprofmem.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/Rscript.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/Rtangle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/RweaveLatex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/SHLIB.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/Sweave.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/SweaveSyntConv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/SweaveUtils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/URLencode.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/View.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/adist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/alarm.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/apropos.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/aregexec.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/arrangeWindows.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/askYesNo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/aspell-utils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/aspell.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/available.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/bibentry.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/browseEnv.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/browseURL.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/browseVignettes.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/bug.report.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/capture.output.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/changedFiles.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/charClass.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/choose.dir.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/choose.files.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/chooseBioCmirror.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/chooseCRANmirror.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/citEntry.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/citation.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/cite.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/clipboard.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/close.socket.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/combn.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/compareVersion.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/contrib.url.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/count.fields.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/create.post.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/data.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/dataentry.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/debugcall.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/debugger.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/demo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/download.file.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/download.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/edit.data.frame.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/edit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/example.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/file.edit.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/filetest.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/findCRANmirror.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/findLineNum.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/fix.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/flush.console.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/format.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/getAnywhere.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/getFromNamespace.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/getParseData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/getS3method.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/getWindowsHandle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/getWindowsHandles.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/glob2rx.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/globalVariables.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/hasName.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/hashtab.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/head.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/help.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/help.request.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/help.search.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/help.start.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/hsearch-utils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/install.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/installed.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/isS3method.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/isS3stdGen.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/localeToCharset.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/ls_str.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/maintainer.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/make.packages.html.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/make.socket.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/memory.size.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/menu.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/methods.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/mirrorAdmin.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/modifyList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/news.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/nsl.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/object.size.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/package.skeleton.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/packageDescription.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/packageName.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/packageStatus.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/page.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/person.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/process.events.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/prompt.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/promptData.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/promptPackage.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/rcompgen.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/read.DIF.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/read.fortran.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/read.fwf.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/read.socket.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/read.table.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/readRegistry.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/recover.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/relist.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/remove.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/removeSource.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/roman.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/rtags.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/savehistory.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/select.list.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/sessionInfo.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/setRepositories.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/setWindowTitle.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/shortPathName.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/sourceutils.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/stack.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/str.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/strcapture.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/summaryRprof.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/tar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/toLatex.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/txtProgressBar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/type.convert.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/untar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/unzip.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/update.packages.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/url.show.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/utils-defunct.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/utils-deprecated.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/utils-package.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/vignette.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/warnErrList.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/winDialog.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/winMenus.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/winProgressBar.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/winextras.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/write.table.html
+ for i in /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/*/html/*.html
+ sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/utils/html/zip.html
+ chmod +x /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/R/sh/echo.sh
+ chmod +x /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/BATCH /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/COMPILE /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/INSTALL /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/LINK /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/R /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/REMOVE /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Rcmd /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Rd2pdf /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Rdconv /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Rdiff /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Rprof /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Rscript /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/SHLIB /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Stangle /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Sweave /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/build /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/check /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/config /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/exec /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/javareconf /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/libtool /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/mkinstalldirs /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/pager /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/rtags
+ chmod -x /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/library/mgcv/CITATION /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/doc/R/CAPABILITIES
+ '[' '!' -d /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/include ']'
~/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R ~/build/BUILD/R-4.2.2
+ pushd /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R
+ ln -s ../../include/R include
+ popd
~/build/BUILD/R-4.2.2
+ '[' '!' -d /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/texmf/tex/latex/R ']'
+ mkdir -p /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/texmf/tex/latex
+ pushd /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/texmf/tex/latex
~/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/texmf/tex/latex ~/build/BUILD/R-4.2.2
+ ln -s /usr/share/R/texmf/tex/latex R
+ popd
~/build/BUILD/R-4.2.2
+ /usr/lib/rpm/find-debuginfo.sh -j8 --strict-build-id -m -i --build-id-seed 4.2.2-1.el8 --unique-debug-suffix -4.2.2-1.el8.aarch64 --unique-debug-src-base R-4.2.2-1.el8.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/R-4.2.2
extracting debug info from /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Rscript
extracting debug info from /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/exec/R
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/usr/lib/rpm/sepdebugcrcfix: Updated 33 CRC32s, 0 CRC32s did match.
20082 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
/sbin/ldconfig: Warning: ignoring configuration file that cannot be opened: /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/etc/ld.so.conf: No such file or directory
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/brp-python-bytecompile '' 1
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/bin/true
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.0vII0x
+ umask 022
+ cd /builddir/build/BUILD
+ cd R-4.2.2
+ exit 0
Processing files: R-4.2.2-1.el8.aarch64
Processing files: R-core-4.2.2-1.el8.aarch64
warning: Duplicate build-ids /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/bin/Rscript and /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib64/R/bin/Rscript
Provides: R(ABI) = 4.2 R(KernSmooth) = 2.23.20 R(MASS) = 7.3.58.1 R(Matrix) = 1.5.1 R(base) = 4.2.2 R(boot) = 1.3.28 R(class) = 7.3.20 R(cluster) = 2.1.4 R(codetools) = 0.2.18 R(compiler) = 4.2.2 R(datasets) = 4.2.2 R(foreign) = 0.8.83 R(grDevices) = 4.2.2 R(graphics) = 4.2.2 R(grid) = 4.2.2 R(lattice) = 0.20.45 R(methods) = 4.2.2 R(mgcv) = 1.8.41 R(nlme) = 3.1.160 R(nnet) = 7.3.18 R(parallel) = 4.2.2 R(rpart) = 4.1.19 R(spatial) = 7.3.15 R(splines) = 4.2.2 R(stats) = 4.2.2 R(stats4) = 4.2.2 R(survival) = 3.4.0 R(tcltk) = 4.2.2 R(tools) = 4.2.2 R(translations) = 4.2.2 R(utils) = 4.2.2 R-KernSmooth = 2.23.20 R-MASS = 7.3.58.1 R-Matrix = 1.5.1 R-base = 4.2.2 R-boot = 1.3.28 R-class = 7.3.20 R-cluster = 2.1.4 R-codetools = 0.2.18 R-compiler = 4.2.2 R-core = 4.2.2-1.el8 R-core(aarch-64) = 4.2.2-1.el8 R-datasets = 4.2.2 R-foreign = 0.8.83 R-grDevices = 4.2.2 R-graphics = 4.2.2 R-grid = 4.2.2 R-lattice = 0.20.45 R-methods = 4.2.2 R-mgcv = 1.8.41 R-nlme = 3.1.160 R-nnet = 7.3.18 R-parallel = 4.2.2 R-rpart = 4.1.19 R-spatial = 7.3.15 R-splines = 4.2.2 R-stats = 4.2.2 R-stats4 = 4.2.2 R-survival = 3.4.0 R-tcltk = 4.2.2 R-tools = 4.2.2 R-translations = 4.2.2 R-utils = 4.2.2 config(R-core) = 4.2.2-1.el8 libR.so()(64bit)
Requires(interp): /bin/sh /bin/sh /bin/sh
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires(post): /bin/sh
Requires(postun): /bin/sh
Requires(posttrans): /bin/sh
Requires: /bin/sh ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libICE.so.6()(64bit) libR.so()(64bit) libSM.so.6()(64bit) libX11.so.6()(64bit) libXext.so.6()(64bit) libXmu.so.6()(64bit) libXt.so.6()(64bit) libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.27)(64bit) libcairo.so.2()(64bit) libcurl.so.4()(64bit) libdl.so.2()(64bit) libdl.so.2(GLIBC_2.17)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgfortran.so.5()(64bit) libglib-2.0.so.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(OMP_1.0)(64bit) libicui18n.so.60()(64bit) libicuuc.so.60()(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_2.17)(64bit) libm.so.6(GLIBC_2.23)(64bit) libopenblaso.so.0()(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) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.17)(64bit) libreadline.so.7()(64bit) librt.so.1()(64bit) libtcl8.6.so()(64bit) libtiff.so.5()(64bit) libtiff.so.5(LIBTIFF_4.0)(64bit) libtk8.6.so()(64bit) libtre.so.5()(64bit) libz.so.1()(64bit) rtld(GNU_HASH)
Obsoletes: R-Matrix < 0.999375-7
Recommends: cups
Processing files: R-core-devel-4.2.2-1.el8.aarch64
Provides: R-Matrix-devel = 1.5.1 R-core-devel = 4.2.2-1.el8 R-core-devel(aarch-64) = 4.2.2-1.el8 pkgconfig(libR) = 4.2.2
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
Processing files: R-devel-4.2.2-1.el8.aarch64
Processing files: R-java-4.2.2-1.el8.aarch64
Processing files: R-java-devel-4.2.2-1.el8.aarch64
Processing files: libRmath-4.2.2-1.el8.aarch64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.bvKUi8
+ umask 022
+ cd /builddir/build/BUILD
+ cd R-4.2.2
+ DOCDIR=/builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/doc/libRmath
+ export LC_ALL=C
+ LC_ALL=C
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/doc/libRmath
+ cp -pr doc/COPYING /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/share/doc/libRmath
+ exit 0
Provides: libRmath = 4.2.2-1.el8 libRmath(aarch-64) = 4.2.2-1.el8 libRmath.so()(64bit)
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libgomp.so.1()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.23)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.17)(64bit) rtld(GNU_HASH)
Processing files: libRmath-devel-4.2.2-1.el8.aarch64
Provides: libRmath-devel = 4.2.2-1.el8 libRmath-devel(aarch-64) = 4.2.2-1.el8 pkgconfig(libRmath) = 4.2.2
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-4.2.2-1.el8.aarch64
Provides: libRmath-static = 4.2.2-1.el8 libRmath-static(aarch-64) = 4.2.2-1.el8
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-debugsource-4.2.2-1.el8.aarch64
Provides: R-debugsource = 4.2.2-1.el8 R-debugsource(aarch-64) = 4.2.2-1.el8
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-debuginfo-4.2.2-1.el8.aarch64
Provides: R-debuginfo = 4.2.2-1.el8 R-debuginfo(aarch-64) = 4.2.2-1.el8
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: R-debugsource(aarch-64) = 4.2.2-1.el8
Processing files: R-core-debuginfo-4.2.2-1.el8.aarch64
warning: Duplicate build-ids /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib/debug/usr/bin/Rscript-4.2.2-1.el8.aarch64.debug and /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64/usr/lib/debug/usr/lib64/R/bin/Rscript-4.2.2-1.el8.aarch64.debug
Provides: R-core-debuginfo = 4.2.2-1.el8 R-core-debuginfo(aarch-64) = 4.2.2-1.el8 debuginfo(build-id) = 001cc2e4de4c39225ca3f4fcd25fd43e5d203ee4 debuginfo(build-id) = 0839d83394c8562935f9eb8f1a85500995fd661d debuginfo(build-id) = 1170c38ce3798d61944a024b7dd7210b38a250bb debuginfo(build-id) = 13adc93812f9183b64645dd96f286843861c17d7 debuginfo(build-id) = 16df3b1b3bffcf21b05571ebd2df215d31481d62 debuginfo(build-id) = 1a225e75409aeb9311e6fef6ff768945df3df1d0 debuginfo(build-id) = 1c9c57c3a1da55e5d15a06ba4d6fbf731ffbb178 debuginfo(build-id) = 45e2706614fcd44984b744c32cc2e6830c5c1c4d debuginfo(build-id) = 5871bff9eb3b02bbfc6f6d21e71f79b13871fc44 debuginfo(build-id) = 5b52ff110e4138fb3aba68a5da82dceb9b72f9de debuginfo(build-id) = 5ea7e723b994e25bad81703e973f122866c50701 debuginfo(build-id) = 64d8aa9934809258e679a5cad8d29dc6c7197992 debuginfo(build-id) = 66515ddabe854cdaab3ef6dca7c458627b4bf649 debuginfo(build-id) = 74443edb4bbd4d908aeb39356f3b5e3f3b8e1a1c debuginfo(build-id) = 7ca9503008de6181d6547fce0932b4e85a838f24 debuginfo(build-id) = 8b14f221eea152e1eef9175eda728437a5f98f69 debuginfo(build-id) = 94b4efa9d79e58f902e48c2f03860fc333566436 debuginfo(build-id) = 9b0212bf963a6e1771a8a4b764d76722da7efbd6 debuginfo(build-id) = a0f0ae86a411105f15bb312f5aa4885182b706d8 debuginfo(build-id) = ac14f5da313218bdefef84f45d8b39e415a0f073 debuginfo(build-id) = b05bdbf1be5c086b445c2cdd957cdd7251b728ec debuginfo(build-id) = bdacb23598ec3e090636b90ba86c44ba7966a2a4 debuginfo(build-id) = c2b8c695d5a5d13e31f15eb43bf7784369c533e2 debuginfo(build-id) = c2d5d6e93598dc933bf1ae69d46078816f3c57aa debuginfo(build-id) = c8bd18d468a8f41b8038a057cf95bb4e812697e1 debuginfo(build-id) = cc9a918a59991ac18eb57d2526bb2d130944ed55 debuginfo(build-id) = d0527dcc6eb0ef7724d63ebebc1ed7238487979d debuginfo(build-id) = d816b3b514b016b67cb1a9e96bfaf0d4e89d1eb5 debuginfo(build-id) = e381b55df8dd31eb2269777ed3777b70316b0d71 debuginfo(build-id) = ec4ae1e0ff6fd638b35b981de1ed9f61a05c7ed8 debuginfo(build-id) = f026cdb9f34bbda76ae961f426d83e392a1545e4
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: R-debugsource(aarch-64) = 4.2.2-1.el8
Processing files: libRmath-debuginfo-4.2.2-1.el8.aarch64
Provides: debuginfo(build-id) = a5d393141c7672d1f9d77361a93a25677eec2276 libRmath-debuginfo = 4.2.2-1.el8 libRmath-debuginfo(aarch-64) = 4.2.2-1.el8
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: R-debugsource(aarch-64) = 4.2.2-1.el8
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-4.2.2-1.el8.aarch64
Wrote: /builddir/build/RPMS/R-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/R-core-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/R-core-devel-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/R-devel-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/R-java-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/R-java-devel-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/libRmath-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/libRmath-devel-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/libRmath-static-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/R-debugsource-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/R-debuginfo-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/R-core-debuginfo-4.2.2-1.el8.aarch64.rpm
Wrote: /builddir/build/RPMS/libRmath-debuginfo-4.2.2-1.el8.aarch64.rpm
Child return code was: 0