Source: genometools Version: 1.6.2+ds-3 Severity: minor Tags: trixie sid ftbfs User: [email protected] Usertags: ftbfs-sab-20230813 ftbfs-source-after-build User: [email protected] 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 genometools > dpkg-buildpackage: info: source version 1.6.2+ds-3 > dpkg-buildpackage: info: source distribution unstable > dpkg-buildpackage: info: source changed by Andreas Tille <[email protected]> > dpkg-source --before-build . > debian/rules clean > dh clean --with python3 > debian/rules override_dh_auto_clean > make[1]: Entering directory '/<<PKGBUILDDIR>>' > mkdir -p obj > /usr/bin/make cleanup > make[2]: Entering directory '/<<PKGBUILDDIR>>' > rm -rf lib > find obj -name '*.o' -delete > rm -f obj/amalgamation.c > rm -rf testsuite/stest_testsuite testsuite/stest_stest_tests > /usr/bin/make -s -C ./doc/devguide clean > make[3]: Entering directory '/<<PKGBUILDDIR>>/doc/devguide' > make[3]: Leaving directory '/<<PKGBUILDDIR>>/doc/devguide' > /usr/bin/make -s -C ./doc/manuals clean > make[3]: Entering directory '/<<PKGBUILDDIR>>/doc/manuals' > make[3]: Leaving directory '/<<PKGBUILDDIR>>/doc/manuals' > rm -f doc/manuals/api_reference.tex \ > doc/manuals/gtscript_reference.tex > find doc . -name "*.toc" -delete > rm -f www/genometools.org/htdocs/images/callbacks.png \ > www/genometools.org/htdocs/images/parsed.png \ > www/genometools.org/htdocs/images/constructed.png \ > doc/manuals/annotationsketch.pdf > rm -f www/genometools.org/htdocs/examples.html > rm -rf doc/manpages > find testdata \( -name '*.esq' -o -name '*.sds' -o -name '*.ssp' \ > -o -name '*.ois' -o -name '*.al1' \) \ > -a ! \( -name 'foo.[36][24].*' \) -delete > find obj -name '*.splint' -delete > find obj -name '*.check' -delete > find obj -name '*.sb' -delete > rm -rf bin obj > rm -rf gtpython/build > /usr/bin/make -s -C ./doc/manuals cleanup > make[3]: Entering directory '/<<PKGBUILDDIR>>/doc/manuals' > make[3]: Leaving directory '/<<PKGBUILDDIR>>/doc/manuals' > make[2]: Leaving directory '/<<PKGBUILDDIR>>' > cd doc/manuals; /usr/bin/make cleanup > make[2]: Entering directory '/<<PKGBUILDDIR>>/doc/manuals' > rm -f *.aux *.log *.bbl *.blg *.dvi *.mer *.mct *.mbd comment.cut > rm -f *.out *.toc > rm -f U89959.fna read[12].fna > rm -f reads.al1 reads.esq reads.lcp reads.llv reads.prj reads.suf > rm -f tallymer-tmp.tex > rm -f tagerator-tmp.tex Q1.gz pck-human.* > rm -f readjoiner.pdf hop.pdf ltrharvest.pdf ltrdigest.pdf uniquesub.pdf > matstat.pdf mgth.pdf packedindex.pdf repfind.pdf tallymer.pdf tagerator.pdf > genomediff.pdf > make[2]: Leaving directory '/<<PKGBUILDDIR>>/doc/manuals' > # should be deleted inside doc/manuals/Makefile > rm -f doc/manuals/annotationsketch.out \ > doc/manuals/api_reference.tex \ > doc/manuals/gtscript_reference.tex > find doc . -name "*.toc" -delete > find testdata \( -name '*.ois' -or -name '*.sds' -or -name '*.esq' -or \ > -name '*.ssp' -or -name '*.des' -or -name "*.md5" \) -and \( -not \ > -name '*foo.32.*' -not -name '*foo.64.*' \) -delete > rm -f www/genometools.org/htdocs/images/callbacks.png \ > www/genometools.org/htdocs/images/parsed.png \ > www/genometools.org/htdocs/images/constructed.png \ > doc/manuals/annotationsketch.pdf > rm -f www/genometools.org/htdocs/examples.html \ > www/genometools.org/htdocs/libgenometools.html > rm -rf gtpython/build > rm -rf obj > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > dh_clean > dpkg-source -b . > dpkg-source: info: using source format '3.0 (quilt)' > dpkg-source: info: building genometools using existing > ./genometools_1.6.2+ds.orig.tar.xz > dpkg-source: info: using patch list from debian/patches/series > dpkg-source: warning: ignoring deletion of file > www/genometools.org/htdocs/libgenometools.html, use --include-removal to > override > dpkg-source: warning: file > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/__init__.py has no final > newline (either original or modified version) > dpkg-source: warning: file > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/version.py has no final > newline (either original or modified version) > dpkg-source: warning: file > genometools-1.6.2+ds/gtpython/GenomeTools.egg-info/SOURCES.txt has no final > newline (either original or modified version) > dpkg-source: info: local changes detected, the modified files are: > genometools-1.6.2+ds/.pybuild/cpython3_3.11/.pydistutils.cfg > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/__init__.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/__init__.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/block.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/canvas.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/color.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/custom_track.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/custom_track_example.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/diagram.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/feature_index.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/feature_stream.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/graphics.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/image_info.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/layout.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/rec_map.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/annotationsketch/style.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/__init__.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/alphabet.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/array.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/encseq.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/error.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/gtrange.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/gtstr.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/readmode.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/str_array.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/core/warning.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/dlload.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/__init__.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/add_introns_stream.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/anno_db.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/comment_node.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/custom_stream.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/custom_stream_example.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/custom_visitor.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/custom_visitor_example.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/dup_feature_stream.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/eof_node.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/feature_index.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/feature_node.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/feature_stream.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/genome_node.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/genome_stream.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/gff3_in_stream.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/gff3_out_stream.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/gff3_visitor.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/inter_feature_stream.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/merge_feature_stream.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/meta_node.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/node_visitor.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/rdb.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/region_node.py > > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/sequence_node.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/sort_stream.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/extended/strand.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/props.py > genometools-1.6.2+ds/.pybuild/cpython3_3.11/build/gt/version.py > genometools-1.6.2+ds/gtpython/GenomeTools.egg-info/PKG-INFO > genometools-1.6.2+ds/gtpython/GenomeTools.egg-info/SOURCES.txt > genometools-1.6.2+ds/gtpython/GenomeTools.egg-info/dependency_links.txt > genometools-1.6.2+ds/gtpython/GenomeTools.egg-info/top_level.txt > genometools-1.6.2+ds/www/genometools.org/htdocs/docs.html > dpkg-source: error: aborting due to unexpected upstream changes, see > /tmp/genometools_1.6.2+ds-3.diff.B1ntAY > dpkg-source: info: Hint: make sure the version in debian/changelog matches > the unpacked source tree > dpkg-source: info: you can integrate the local changes with dpkg-source > --commit > dpkg-buildpackage: error: dpkg-source -b . subprocess returned exit status 2 > > 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/genometools_1.6.2+ds-3_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.
