Mock Version: 3.5 Mock Version: 3.5 Mock Version: 3.5 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target noarch --nodeps /builddir/build/SPECS/R-BSgenome.spec'], chrootPath='/var/lib/mock/f39-build-1540482-36472/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=864000uid=996gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target noarch --nodeps /builddir/build/SPECS/R-BSgenome.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'} and shell False Building target platforms: noarch Building for target noarch setting SOURCE_DATE_EPOCH=1689724800 Wrote: /builddir/build/SRPMS/R-BSgenome-1.64.0-4.fc39.src.rpm Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target noarch --nodeps /builddir/build/SPECS/R-BSgenome.spec'], chrootPath='/var/lib/mock/f39-build-1540482-36472/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=864000uid=996gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target noarch --nodeps /builddir/build/SPECS/R-BSgenome.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'} and shell False Building target platforms: noarch Building for target noarch setting SOURCE_DATE_EPOCH=1689724800 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.S0Kh2l + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf BSgenome + /usr/bin/mkdir -p BSgenome + cd BSgenome + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/BSgenome_1.64.0.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + rm -rf /builddir/build/BUILD/BSgenome-SPECPARTS + /usr/bin/mkdir -p /builddir/build/BUILD/BSgenome-SPECPARTS + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.75cO96 + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -I/usr/lib/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -I/usr/lib/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd BSgenome + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.CxPZ2i + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch '!=' / ']' + rm -rf /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch ++ dirname /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -I/usr/lib/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -I/usr/lib/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd BSgenome + rm -rf /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch + mkdir -p /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch/usr/share/R/library + R CMD INSTALL BSgenome -l /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch/usr/share/R/library * installing *source* package ‘BSgenome’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘BSgenome’ finding HTML links ... done BSParams-class html finding level-2 HTML links ... done BSgenome-class html BSgenome-utils html BSgenomeForge html BSgenomeViews-class html SNPlocs-class html XtraSNPlocs-class html available.genomes html bsapply html export-methods html getSeq-methods html injectSNPs html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BSgenome) + test -d BSgenome/src + rm -rf /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch/usr/share/R/library/R.css + /usr/bin/find-debuginfo -j8 --strict-build-id -m -i --build-id-seed 1.64.0-4.fc39 --unique-debug-suffix -1.64.0-4.fc39.noarch --unique-debug-src-base R-BSgenome-1.64.0-4.fc39.noarch --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/BSgenome find-debuginfo: starting Extracting debug info from 0 files Creating .debug symlinks for symlinks to ELF files find-debuginfo: done + /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/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Cfamiliaris.UCSC.canFam3-tools/splitbigfasta.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro3-tools/splitbigfasta.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac3-tools/splitbigfasta.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Creinhardtii.JGI.v5.6-tools/fasta_to_2bit.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Sscrofa.UCSC.susScr3-tools/splitbigfasta.R is executable but has no shebang, removing executable bit mangling shebang in /usr/share/R/library/BSgenome/extdata/GentlemanLab/bump_seed_version.sh from /bin/bash to #!/usr/bin/bash *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer6-tools/splitbigfasta.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer7-tools/splitbigfasta.R is executable but has no shebang, removing executable bit mangling shebang in /usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.BeeBase.assembly4-tools/splitbigfasta.sh from /bin/bash to #!/usr/bin/bash *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Hsapiens.NCBI.GRCh38-tools/splitbigfasta.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Gmellonella.NCBI.ASM364042v2-tools/fasta_to_sorted_2bit.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Rnorvegicus.UCSC.rn5-tools/splitbigfasta.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR10.1-tools/splitbigfasta.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Amellifera.NCBI.AmelHAv3.1-tools/fasta_to_sorted_2bit.R is executable but has no shebang, removing executable bit mangling shebang in /usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer5-tools/splitbigfasta.sh from /bin/bash to #!/usr/bin/bash *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau6-tools/splitbigfasta.R is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/R/library/BSgenome/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal4-tools/splitbigfasta.R is executable but has no shebang, removing executable bit + /usr/lib/rpm/brp-remove-la-files + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j8 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.S7iXoL + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -I/usr/lib/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -I/usr/lib/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd BSgenome + RPM_EC=0 ++ jobs -p + exit 0 Processing files: R-BSgenome-1.64.0-4.fc39.noarch Provides: R(BSgenome) = 1.64.0 R-BSgenome = 1.64.0-4.fc39 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/bash R(ABI) = 4.3 R(BiocGenerics) >= 0.13.8 R(Biostrings) >= 2.47.6 R(GenomeInfoDb) >= 1.25.6 R(GenomicRanges) >= 1.31.10 R(IRanges) >= 2.13.16 R(Rsamtools) R(S4Vectors) >= 0.17.28 R(XVector) >= 0.29.3 R(matrixStats) R(methods) R(rtracklayer) >= 1.39.7 R(stats) R(utils) R-core >= 2.8.0 Suggests: R(BSgenome.Celegans.UCSC.ce2) R(BSgenome.Hsapiens.NCBI.GRCh38) R(BSgenome.Hsapiens.UCSC.hg38) R(BSgenome.Hsapiens.UCSC.hg38.masked) R(BSgenome.Mmusculus.UCSC.mm10) R(BSgenome.Rnorvegicus.UCSC.rn5) R(BSgenome.Scerevisiae.UCSC.sacCer1) R(Biobase) R(BiocManager) R(RUnit) R(SNPlocs.Hsapiens.dbSNP144.GRCh38) R(TxDb.Hsapiens.UCSC.hg38.knownGene) R(TxDb.Mmusculus.UCSC.mm10.knownGene) R(XtraSNPlocs.Hsapiens.dbSNP144.GRCh38) R(hgu95av2probe) Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-BSgenome-1.64.0-4.fc39.noarch Wrote: /builddir/build/RPMS/R-BSgenome-1.64.0-4.fc39.noarch.rpm Child return code was: 0