D: [iurt_root_command] chroot Installing /home/iurt/rpmbuild/SRPMS/R-RInside-0.2.16-1.mga8.src.rpm Building target platforms: x86_64 Building for target x86_64 Executing(%prep): /bin/sh -e /home/iurt/rpmbuild/tmp/rpm-tmp.hiApNt + umask 022 + cd /home/iurt/rpmbuild/BUILD + '[' 1 -eq 1 ']' + '[' 1 -eq 1 ']' + '[' 1 -eq 1 ']' + cd /home/iurt/rpmbuild/BUILD + rm -rf R-RInside-0.2.16 + /usr/bin/mkdir -p R-RInside-0.2.16 + cd R-RInside-0.2.16 + /usr/bin/gzip -dc /home/iurt/rpmbuild/SOURCES/RInside_0.2.16.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 /home/iurt/rpmbuild/tmp/rpm-tmp.fyQtsv + umask 022 + cd /home/iurt/rpmbuild/BUILD + cd R-RInside-0.2.16 + '[' 1 -eq 1 ']' + '[' 1 -eq 1 ']' + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /home/iurt/rpmbuild/tmp/rpm-tmp.2nflJv + umask 022 + cd /home/iurt/rpmbuild/BUILD + '[' 1 -eq 1 ']' + '[' /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64 '!=' / ']' + rm -rf /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64 ++ dirname /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64 + mkdir -p /home/iurt/rpmbuild/BUILDROOT + mkdir /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64 + cd R-RInside-0.2.16 + '[' 1 -eq 1 ']' + mkdir -p /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library + /usr/bin/R CMD INSTALL -l /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library RInside * installing *source* package 'RInside' ... file 'R/RInsidePaths.R' has the wrong MD5 checksum ** using staged installation ** libs /usr/lib64/R/bin/Rscript tools/RInsideAutoloads.r > RInsideAutoloads.h /usr/lib64/R/bin/Rscript tools/RInsideEnvVars.r > RInsideEnvVars.h x86_64-mageia-linux-gnu-g++ -std=gnu++11 -I"/usr/lib64/R/include" -DNDEBUG -I. -I../inst/include/ -I"/usr/lib64/R/library/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wformat -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fstack-protector --param=ssp-buffer-size=4 -fasynchronous-unwind-tables -c MemBuf.cpp -o MemBuf.o x86_64-mageia-linux-gnu-g++ -std=gnu++11 -I"/usr/lib64/R/include" -DNDEBUG -I. -I../inst/include/ -I"/usr/lib64/R/library/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wformat -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fstack-protector --param=ssp-buffer-size=4 -fasynchronous-unwind-tables -c RInside.cpp -o RInside.o x86_64-mageia-linux-gnu-g++ -std=gnu++11 -I"/usr/lib64/R/include" -DNDEBUG -I. -I../inst/include/ -I"/usr/lib64/R/library/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wformat -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fstack-protector --param=ssp-buffer-size=4 -fasynchronous-unwind-tables -c RInside_C.cpp -o RInside_C.o x86_64-mageia-linux-gnu-g++ -std=gnu++11 -I"/usr/lib64/R/include" -DNDEBUG -I. -I../inst/include/ -I"/usr/lib64/R/library/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wformat -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fstack-protector --param=ssp-buffer-size=4 -fasynchronous-unwind-tables -c RcppExports.cpp -o RcppExports.o x86_64-mageia-linux-gnu-g++ -std=gnu++11 -I"/usr/lib64/R/include" -DNDEBUG -I. -I../inst/include/ -I"/usr/lib64/R/library/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wformat -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fstack-protector --param=ssp-buffer-size=4 -fasynchronous-unwind-tables -c compiler.cpp -o compiler.o x86_64-mageia-linux-gnu-g++ -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,--as-needed -Wl,-z,relro -Wl,-O1 -Wl,--build-id -Wl,--enable-new-dtags -o RInside.so MemBuf.o RInside.o RInside_C.o RcppExports.o compiler.o -L/usr/lib64/R/lib -lR x86_64-mageia-linux-gnu-g++ -std=gnu++11 -o libRInside.so MemBuf.o RInside.o RInside_C.o RcppExports.o compiler.o -shared -Wl,--as-needed -Wl,-z,relro -Wl,-O1 -Wl,--build-id -Wl,--enable-new-dtags -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 /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.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 ** 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 /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library/R.css + rm -rf RInside/inst/lib + rm /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library/RInside/lib/libRInside.a + mv /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library/RInside/lib/libRInside.so /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64 + rmdir /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library/RInside/lib + /usr/lib/rpm/find-debuginfo.sh -j96 --strict-build-id -m -i --build-id-seed 0.2.16-1.mga8 --unique-debug-suffix -0.2.16-1.mga8.x86_64 --unique-debug-src-base R-RInside-0.2.16-1.mga8.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /home/iurt/rpmbuild/BUILD/R-RInside-0.2.16 explicitly decompress any DWARF compressed ELF sections in /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/libRInside.so explicitly decompress any DWARF compressed ELF sections in /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library/RInside/libs/RInside.so extracting debug info from /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library/RInside/libs/RInside.so extracting debug info from /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/libRInside.so original debug info size: 3772kB, size after compression: 2844kB /usr/lib/rpm/sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match. 102 blocks + /usr/lib/rpm/check-buildroot + '[' -n '' ']' + /usr/share/spec-helper/clean_files + '[' -n '' ']' + /usr/share/spec-helper/compress_files .xz + '[' -n '' ']' + /usr/share/spec-helper/relink_symlinks + '[' -n '' ']' + /usr/share/spec-helper/clean_perl + '[' -n '' ']' + /usr/share/spec-helper/lib_symlinks + '[' -n '' ']' + /usr/share/spec-helper/gprintify + '[' -n '' ']' + /usr/share/spec-helper/fix_mo + '[' -n '' ']' + /usr/share/spec-helper/fix_pamd + '[' -n '' ']' + /usr/share/spec-helper/remove_info_dir + '[' -n '' ']' + /usr/share/spec-helper/fix_eol + '[' -n '' ']' + /usr/share/spec-helper/check_desktop_files + '[' -n '' ']' + /usr/share/spec-helper/check_elf_files + /usr/lib/rpm/brp-python-bytecompile /usr/bin/python3 1 1 + /usr/lib/rpm/brp-python-hardlink + /usr/lib/rpm/redhat/brp-mangle-shebangs Executing(%check): /bin/sh -e /home/iurt/rpmbuild/tmp/rpm-tmp.kQAeMt + umask 022 + cd /home/iurt/rpmbuild/BUILD + cd R-RInside-0.2.16 + '[' 1 -eq 1 ']' + /usr/bin/R CMD check RInside * using log directory '/home/iurt/rpmbuild/BUILD/R-RInside-0.2.16/RInside.Rcheck' * using R version 3.6.3 (2020-02-29) * using platform: x86_64-mageia-linux-gnu (64-bit) * using session charset: ASCII * checking for file 'RInside/DESCRIPTION' ... OK * this is package 'RInside' version '0.2.16' * 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/3.10/bioc/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.10/bioc/src/contrib/PACKAGES' Warning: unable to access index for repository https://bioconductor.org/packages/3.10/data/annotation/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.10/data/annotation/src/contrib/PACKAGES' Warning: unable to access index for repository https://bioconductor.org/packages/3.10/data/experiment/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.10/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 * checking installed package size ... NOTE installed size is 9.3Mb sub-directories of 1Mb or more: lib 6.8Mb libs 1.9Mb * 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 R 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 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_ReplDLLdo1', 'R_ReplDLLinit', 'R_RunExitFinalizers', 'R_SetParams', 'R_SignalHandlers', 'R_TempDir', 'Rf_endEmbeddedR', 'Rf_initEmbeddedR' 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. 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 ... WARNING LaTeX errors when creating PDF version. This typically indicates Rd problems. * checking PDF version of manual without hyperrefs or index ... OK * DONE Status: 1 WARNING, 2 NOTEs See '/home/iurt/rpmbuild/BUILD/R-RInside-0.2.16/RInside.Rcheck/00check.log' for details. + RPM_EC=0 ++ jobs -p + exit 0 Processing files: R-RInside-0.2.16-1.mga8.x86_64 warning: Duplicate build-ids /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/R/library/RInside/libs/RInside.so and /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib64/libRInside.so Provides: R(RInside) = 0.2.16 R-RInside = 0.2.16-1.mga8 R-RInside(x86-64) = 0.2.16-1.mga8 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) = 3.6 R(Rcpp) R-core libR.so()(64bit) libc.so.6()(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) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(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_3.4.9)(64bit) Processing files: R-RInside-devel-0.2.16-1.mga8.x86_64 Provides: R-RInside-devel = 0.2.16-1.mga8 R-RInside-devel(x86-64) = 0.2.16-1.mga8 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-RInside-examples-0.2.16-1.mga8.x86_64 Provides: R-RInside-examples = 0.2.16-1.mga8 R-RInside-examples(x86-64) = 0.2.16-1.mga8 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-RInside-debugsource-0.2.16-1.mga8.x86_64 Provides: R-RInside-debugsource = 0.2.16-1.mga8 R-RInside-debugsource(x86-64) = 0.2.16-1.mga8 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-RInside-debuginfo-0.2.16-1.mga8.x86_64 warning: Duplicate build-ids /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib/debug/usr/lib64/R/library/RInside/libs/RInside.so-0.2.16-1.mga8.x86_64.debug and /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64/usr/lib/debug/usr/lib64/libRInside.so-0.2.16-1.mga8.x86_64.debug Provides: R-RInside-debuginfo = 0.2.16-1.mga8 R-RInside-debuginfo(x86-64) = 0.2.16-1.mga8 debuginfo(build-id) = 2a0fe407acb82b73f8aa2be50d1f24e48f5e7f74 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) = 0.2.16-1.mga8 Checking for unpackaged file(s): /usr/lib/rpm/check-files /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64 Wrote: /home/iurt/rpmbuild/RPMS/x86_64/R-RInside-devel-0.2.16-1.mga8.x86_64.rpm Wrote: /home/iurt/rpmbuild/RPMS/x86_64/R-RInside-debugsource-0.2.16-1.mga8.x86_64.rpm Wrote: /home/iurt/rpmbuild/RPMS/x86_64/R-RInside-0.2.16-1.mga8.x86_64.rpm Wrote: /home/iurt/rpmbuild/RPMS/x86_64/R-RInside-examples-0.2.16-1.mga8.x86_64.rpm Wrote: /home/iurt/rpmbuild/RPMS/x86_64/R-RInside-debuginfo-0.2.16-1.mga8.x86_64.rpm Executing(%clean): /bin/sh -e /home/iurt/rpmbuild/tmp/rpm-tmp.S7I8ku + umask 022 + cd /home/iurt/rpmbuild/BUILD + cd R-RInside-0.2.16 + /usr/bin/rm -rf /home/iurt/rpmbuild/BUILDROOT/R-RInside-0.2.16-1.mga8.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Executing(--clean): /bin/sh -e /home/iurt/rpmbuild/tmp/rpm-tmp.IB3bEu + umask 022 + cd /home/iurt/rpmbuild/BUILD + rm -rf R-RInside-0.2.16 + RPM_EC=0 ++ jobs -p + exit 0 D: [iurt_root_command] Success!