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Gentoo's Bugzilla – Attachment 675028 Details for
Bug 756796
[science overlay] dev-perl/BTLib-0.19 : file collision with app-misc/sphinx-2.2.11-r2
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dev-perl:BTLib-0.19:20201126-010107.log
dev-perl:BTLib-0.19:20201126-010107.log (text/plain), 6.99 KB, created by
Toralf Förster
on 2020-11-26 08:09:01 UTC
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Description:
dev-perl:BTLib-0.19:20201126-010107.log
Filename:
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Creator:
Toralf Förster
Created:
2020-11-26 08:09:01 UTC
Size:
6.99 KB
patch
obsolete
> * Package: dev-perl/BTLib-0.19 > * Repository: science > * Maintainer: sci-biology@gentoo.org > * USE: abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU > * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox >>>> Unpacking source... >>>> Unpacking BTLib-0.19.tar.gz to /var/tmp/portage/dev-perl/BTLib-0.19/work >>>> Source unpacked in /var/tmp/portage/dev-perl/BTLib-0.19/work >>>> Preparing source in /var/tmp/portage/dev-perl/BTLib-0.19/work/BTLib-0.19 ... >>>> Source prepared. >>>> Configuring source in /var/tmp/portage/dev-perl/BTLib-0.19/work/BTLib-0.19 ... > * Using ExtUtils::MakeMaker > * perl Makefile.PL PREFIX=/usr INSTALLDIRS=vendor INSTALLMAN3DIR=none DESTDIR=/var/tmp/portage/dev-perl/BTLib-0.19/image/ >Checking if your kit is complete... >Looks good >Generating a Unix-style Makefile >Writing Makefile for BTLib >Writing MYMETA.yml and MYMETA.json >>>> Source configured. >>>> Compiling source in /var/tmp/portage/dev-perl/BTLib-0.19/work/BTLib-0.19 ... > * emake OTHERLDFLAGS=-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 >make -j1 'OTHERLDFLAGS=-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0' >cp FASTAFile.pm blib/lib/FASTAFile.pm >cp UGEntry.pm blib/lib/UGEntry.pm >cp GBEntry.pm blib/lib/GBEntry.pm >cp EMBLEntry.pm blib/lib/EMBLEntry.pm >cp EMBLFile.pm blib/lib/EMBLFile.pm >cp FASTAEntry.pm blib/lib/FASTAEntry.pm >cp SPFile.pm blib/lib/SPFile.pm >cp LitRef.pm blib/lib/LitRef.pm >cp UGFile.pm blib/lib/UGFile.pm >cp GBFile.pm blib/lib/GBFile.pm >cp BTFile.pm blib/lib/BTFile.pm >cp EPDEntry.pm blib/lib/EPDEntry.pm >cp BTLib.pm blib/lib/BTLib.pm >cp EPDFile.pm blib/lib/EPDFile.pm >cp SPEntry.pm blib/lib/SPEntry.pm >Running Mkbootstrap for BTLib () >chmod 644 "BTLib.bs" >"/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- BTLib.bs blib/arch/auto/BTLib/BTLib.bs 644 >"/usr/bin/perl" "/usr/lib64/perl5/5.30.3/ExtUtils/xsubpp" -typemap '/usr/lib64/perl5/5.30.3/ExtUtils/typemap' BTLib.xs > BTLib.xsc >mv BTLib.xsc BTLib.c >x86_64-pc-linux-gnu-gcc -c -fwrapv -fno-strict-aliasing -pipe -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -O2 -pipe -march=native -fno-diagnostics-color -falign-functions=32:25:16 -DVERSION=\"0.19\" -DXS_VERSION=\"0.19\" -fPIC "-I/usr/lib64/perl5/5.30.3/x86_64-linux/CORE" BTLib.c >rm -f blib/arch/auto/BTLib/BTLib.so >x86_64-pc-linux-gnu-gcc -shared -O2 -pipe -march=native -fno-diagnostics-color -falign-functions=32:25:16 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 BTLib.o -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o blib/arch/auto/BTLib/BTLib.so \ > \ > >chmod 755 blib/arch/auto/BTLib/BTLib.so >cp fetch blib/script/fetch >"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/fetch >cp indexer blib/script/indexer >"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/indexer >cp netfetch blib/script/netfetch >"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/netfetch >>>> Source compiled. >>>> Test phase [not enabled]: dev-perl/BTLib-0.19 > >>>> Install dev-perl/BTLib-0.19 into /var/tmp/portage/dev-perl/BTLib-0.19/image/ >make -j1 pure_install >"/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- BTLib.bs blib/arch/auto/BTLib/BTLib.bs 644 >Files found in blib/arch: installing files in blib/lib into architecture dependent library tree >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/auto/BTLib/BTLib.so >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/SPEntry.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/EPDFile.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/BTLib.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/EPDEntry.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/BTFile.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/GBFile.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/UGFile.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/LitRef.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/SPFile.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/FASTAEntry.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/EMBLFile.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/EMBLEntry.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/GBEntry.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/UGEntry.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/FASTAFile.pm >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/bin/netfetch >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/bin/indexer >Installing /var/tmp/portage/dev-perl/BTLib-0.19/image/usr/bin/fetch >>>> Completed installing dev-perl/BTLib-0.19 into /var/tmp/portage/dev-perl/BTLib-0.19/image/ > > * Final size of build directory: 444 KiB > * Final size of installed tree: 176 KiB > >strip: x86_64-pc-linux-gnu-strip --strip-unneeded -N __gentoo_check_ldflags__ -R .comment -R .GCC.command.line -R .note.gnu.gold-version > /usr/lib64/perl5/vendor_perl/5.30.3/x86_64-linux/auto/BTLib/BTLib.so > * checking 19 files for package collisions > * This package will overwrite one or more files that may belong to other > * packages (see list below). You can use a command such as `portageq > * owners / <filename>` to identify the installed package that owns a > * file. If portageq reports that only one package owns a file then do > * NOT file a bug report. A bug report is only useful if it identifies at > * least two or more packages that are known to install the same file(s). > * If a collision occurs and you can not explain where the file came from > * then you should simply ignore the collision since there is not enough > * information to determine if a real problem exists. Please do NOT file > * a bug report at https://bugs.gentoo.org/ unless you report exactly > * which two packages install the same file(s). See > * https://wiki.gentoo.org/wiki/Knowledge_Base:Blockers for tips on how > * to solve the problem. And once again, please do NOT file a bug report > * unless you have completely understood the above message. > * > * Detected file collision(s): > * > * /usr/bin/indexer > * > * Searching all installed packages for file collisions... > * > * Press Ctrl-C to Stop > * > * app-misc/sphinx-2.2.11-r2:0::gentoo > * /usr/bin/indexer > * > * Package 'dev-perl/BTLib-0.19' NOT merged due to file collisions. If > * necessary, refer to your elog messages for the whole content of the > * above message.
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bug 756796
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