Source: subread Version: 2.0.4+dfsg-1 Severity: minor Tags: trixie sid ftbfs User: lu...@debian.org Usertags: ftbfs-sab-20230813 ftbfs-source-after-build User: debian...@lists.debian.org Usertags: qa-doublebuild
Hi, This package fails to build a source package after a successful build (dpkg-buildpackage ; dpkg-buildpackage -S). This is probably a clear violation of Debian Policy section 4.9 (clean target), but this is filed as severity:minor for now, because a discussion on debian-devel showed that we might want to revisit the requirement of a working 'clean' target. More information about this class of issues, included common problems and solutions, is available at https://wiki.debian.org/qa.debian.org/FTBFS/SourceAfterBuild Relevant part of the build log: > cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage --sanitize-env > -us -uc -rfakeroot -S > -------------------------------------------------------------------------------------------------------------------------- > > dpkg-buildpackage: info: source package subread > dpkg-buildpackage: info: source version 2.0.4+dfsg-1 > dpkg-buildpackage: info: source distribution unstable > dpkg-buildpackage: info: source changed by Alexandre Mestiashvili > <mes...@debian.org> > dpkg-source --before-build . > debian/rules clean > dh clean --buildsystem=makefile > debian/rules override_dh_auto_clean > make[1]: Entering directory '/<<PKGBUILDDIR>>' > dh_auto_clean > rm -f test/subread-align/data/test-err-mut-r1.fq.gz > test/subread-align/data/test-err-mut-r2.fq.gz > rm -rf bin src/longread-one/make.version > find . -name "*.o" -delete > dh_auto_clean --sourcedirectory=src -- -f Makefile.Linux > cd src && make -j8 clean -f Makefile.Linux > make[2]: Entering directory '/<<PKGBUILDDIR>>/src' > rm -f core featureCounts exactSNP removeDup subread-buildindex core.o > core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o > hashtable.o input-files.o sorted-hashtable.o gene-value-index.o > exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o > core-bigtable.o seek-zlib.o input-blc.o > make[2]: Leaving directory '/<<PKGBUILDDIR>>/src' > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > dh_autoreconf_clean -O--buildsystem=makefile > dh_clean -O--buildsystem=makefile > rm -f debian/debhelper-build-stamp > rm -rf debian/.debhelper/ > rm -f -- debian/subread.substvars debian/subread-data.substvars > debian/files > rm -fr -- debian/subread/ debian/tmp/ debian/subread-data/ > find . \( \( \ > \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path > .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o > -type f -a \ > \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ > -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ > -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ > -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ > \) -exec rm -f {} + \) -o \ > \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) > \) > dpkg-source -b . > dpkg-source: info: using source format '3.0 (quilt)' > dpkg-source: info: building subread using existing > ./subread_2.0.4+dfsg.orig.tar.xz > dpkg-source: info: using patch list from debian/patches/series > dpkg-source: warning: ignoring deletion of file > src/longread-one/make.version, use --include-removal to override > dpkg-source: error: cannot represent change to > annotation/mm39_RefSeq_exon.txt.gz: binary file contents changed > dpkg-source: error: add annotation/mm39_RefSeq_exon.txt.gz in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: unrepresentable changes to source > dpkg-buildpackage: error: dpkg-source -b . subprocess returned exit status 1 > > E: Command 'cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage > --sanitize-env -us -uc -rfakeroot -S' failed to run. The full build log is available from: http://qa-logs.debian.net/2023/08/13/subread_2.0.4+dfsg-1_unstable.log If you reassign this bug to another package, please mark it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects If you fail to reproduce this, please provide a build log and diff it with mine so that we can identify if something relevant changed in the meantime.
