Mock Version: 5.6
Mock Version: 5.6
Mock Version: 5.6
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target x86_64 --nodeps /builddir/build/SPECS/R-RInside.spec'], chrootPath='/var/lib/mock/epel9-build-54904348-6530863/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 0x7f9760a0ecf0>timeout=201600uid=1000gid=425user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target x86_64 --nodeps /builddir/build/SPECS/R-RInside.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: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1714003200
Wrote: /builddir/build/SRPMS/R-RInside-0.2.18-7.el9.src.rpm
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target x86_64 --nodeps /builddir/build/SPECS/R-RInside.spec'], chrootPath='/var/lib/mock/epel9-build-54904348-6530863/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 0x7f9760a0ecf0>timeout=201600uid=1000gid=425user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target x86_64 --nodeps /builddir/build/SPECS/R-RInside.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: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1714003200
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.jkSNwG
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf R-RInside-0.2.18
+ /usr/bin/mkdir -p R-RInside-0.2.18
+ cd R-RInside-0.2.18
+ /usr/bin/gzip -dc /builddir/build/SOURCES/RInside_0.2.18.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ echo 'Patch #0 (R-RInside-LdFlags.patch):'
Patch #0 (R-RInside-LdFlags.patch):
+ /usr/bin/patch --no-backup-if-mismatch -p0 --fuzz=0
patching file RInside/R/RInsidePaths.R
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.ONFHMB
+ umask 022
+ cd /builddir/build/BUILD
+ cd R-RInside-0.2.18
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.9EvCZ9
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64
++ dirname /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64
+ cd R-RInside-0.2.18
+ mkdir -p /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library
+ /usr/bin/R CMD INSTALL -l /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library RInside
* installing *source* package 'RInside' ...
file 'R/RInsidePaths.R' has the wrong MD5 checksum
** using staged installation
** libs
using C++ compiler: 'g++ (GCC) 11.5.0 20240719 (Red Hat 11.5.0-2)'
/usr/lib64/R/bin/Rscript tools/RInsideAutoloads.r > RInsideAutoloads.h
/usr/lib64/R/bin/Rscript tools/RInsideEnvVars.r   > RInsideEnvVars.h
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I. -I../inst/include/ -I'/usr/lib64/R/library/Rcpp/include' -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -c MemBuf.cpp -o MemBuf.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I. -I../inst/include/ -I'/usr/lib64/R/library/Rcpp/include' -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -c RInside.cpp -o RInside.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I. -I../inst/include/ -I'/usr/lib64/R/library/Rcpp/include' -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -c RInside_C.cpp -o RInside_C.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I. -I../inst/include/ -I'/usr/lib64/R/library/Rcpp/include' -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -I. -I../inst/include/ -I'/usr/lib64/R/library/Rcpp/include' -I/usr/local/include    -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection   -c compiler.cpp -o compiler.o
g++ -std=gnu++17 -shared -L/usr/lib64/R/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o RInside.so MemBuf.o RInside.o RInside_C.o RcppExports.o compiler.o -L/usr/lib64/R/lib -lR
g++ -std=gnu++17 -o libRInside.so MemBuf.o RInside.o RInside_C.o RcppExports.o compiler.o -shared -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1     -L"/usr/lib64/R/lib" -lR
ar qc libRInside.a MemBuf.o RInside.o RInside_C.o RcppExports.o compiler.o
cp libRInside.so ../inst/lib
cp libRInside.a ../inst/lib
rm libRInside.so libRInside.a
installing to /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library/00LOCK-RInside/00new/RInside/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'RInside'
    finding HTML links ... done
    RInside-package                         html  
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (RInside)
+ test -d RInside/src
+ cd RInside/src
+ rm -f MemBuf.o RInside.o RInside_C.o RcppExports.o compiler.o RInside.so
+ rm -rf /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library/R.css
+ rm -rf RInside/inst/lib
+ rm /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library/RInside/lib/libRInside.a
+ mv /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library/RInside/lib/libRInside.so /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64
+ rmdir /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library/RInside/lib
+ /usr/bin/find-debuginfo -j48 --strict-build-id -m -i --build-id-seed 0.2.18-7.el9 --unique-debug-suffix -0.2.18-7.el9.x86_64 --unique-debug-src-base R-RInside-0.2.18-7.el9.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/R-RInside-0.2.18
extracting debug info from /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/libRInside.so
extracting debug info from /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library/RInside/libs/RInside.so
original debug info size: 2304kB, size after compression: 1432kB
/usr/bin/sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match.
104 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.nf5yIj
+ umask 022
+ cd /builddir/build/BUILD
+ cd R-RInside-0.2.18
+ /usr/bin/R CMD check RInside
* using log directory '/builddir/build/BUILD/R-RInside-0.2.18/RInside.Rcheck'
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-redhat-linux-gnu
* R was compiled by
    gcc (GCC) 11.4.1 20231218 (Red Hat 11.4.1-3)
    GNU Fortran (GCC) 11.4.1 20231218 (Red Hat 11.4.1-3)
* running under: Red Hat Enterprise Linux 9.5 (Plow)
* using session charset: ASCII
* checking for file 'RInside/DESCRIPTION' ... OK
* this is package 'RInside' version '0.2.18'
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/bioc/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/annotation/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/experiment/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/experiment/src/contrib/PACKAGES'
 OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'RInside' can be installed ... OK
* used C++ compiler: 'g++ (GCC) 11.5.0 20240719 (Red Hat 11.5.0-2)'
* checking installed package size ... NOTE
  installed size is  8.9Mb
  sub-directories of 1Mb or more:
    lib    7.2Mb
    libs   1.1Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in shell scripts ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking compiled code ... NOTE
File 'RInside/libs/RInside.so':
  Found 'srand', possibly from 'srand' (C)
    Object: 'RInside.o'
File 'RInside/libs/RInside.so':
  Found non-API calls to R: 'R_CStackLimit', 'R_CleanTempDir',
    'R_DefParams', 'R_ReplDLLinit', 'R_RunExitFinalizers',
    'R_SetParams', 'R_SignalHandlers', 'R_TempDir', 'Rf_endEmbeddedR',
    'Rf_initEmbeddedR', 'run_Rmainloop'
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf.
Compiled code should not call non-API entry points in R.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking examples ... NONE
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
  '/builddir/build/BUILD/R-RInside-0.2.18/RInside.Rcheck/00check.log'
for details.
+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: R-RInside-0.2.18-7.el9.x86_64
warning: Duplicate build-ids /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/R/library/RInside/libs/RInside.so and /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib64/libRInside.so
Provides: R(RInside) = 0.2.18 R-RInside = 0.2.18-7.el9 R-RInside(x86-64) = 0.2.18-7.el9 libRInside.so()(64bit)
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: R(ABI) = 4.4 R(Rcpp) R-core libR.so()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.11)(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.4)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) rtld(GNU_HASH)
Processing files: R-RInside-devel-0.2.18-7.el9.x86_64
Provides: R-RInside-devel = 0.2.18-7.el9 R-RInside-devel(x86-64) = 0.2.18-7.el9
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-RInside-examples-0.2.18-7.el9.x86_64
Provides: R-RInside-examples = 0.2.18-7.el9 R-RInside-examples(x86-64) = 0.2.18-7.el9
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-RInside-debugsource-0.2.18-7.el9.x86_64
Provides: R-RInside-debugsource = 0.2.18-7.el9 R-RInside-debugsource(x86-64) = 0.2.18-7.el9
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-RInside-debuginfo-0.2.18-7.el9.x86_64
warning: Duplicate build-ids /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib/debug/usr/lib64/R/library/RInside/libs/RInside.so-0.2.18-7.el9.x86_64.debug and /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64/usr/lib/debug/usr/lib64/libRInside.so-0.2.18-7.el9.x86_64.debug
Provides: R-RInside-debuginfo = 0.2.18-7.el9 R-RInside-debuginfo(x86-64) = 0.2.18-7.el9 debuginfo(build-id) = 0925d6c53c6012dc421f185866cee5b9b29b957a debuginfo(build-id) = nilnil
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: R-RInside-debugsource(x86-64) = 0.2.18-7.el9
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-RInside-0.2.18-7.el9.x86_64
Wrote: /builddir/build/RPMS/R-RInside-devel-0.2.18-7.el9.x86_64.rpm
Wrote: /builddir/build/RPMS/R-RInside-debugsource-0.2.18-7.el9.x86_64.rpm
Wrote: /builddir/build/RPMS/R-RInside-0.2.18-7.el9.x86_64.rpm
Wrote: /builddir/build/RPMS/R-RInside-examples-0.2.18-7.el9.x86_64.rpm
Wrote: /builddir/build/RPMS/R-RInside-debuginfo-0.2.18-7.el9.x86_64.rpm
Child return code was: 0