Source: ivar Version: 1.4.2+dfsg-2 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 ivar > dpkg-buildpackage: info: source version 1.4.2+dfsg-2 > 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 > debian/rules override_dh_auto_clean > make[1]: Entering directory '/<<PKGBUILDDIR>>' > rm -f data/db/test_ref.fa.fai data/test.gap.fa data/test.gap.qual.txt > data/test.indel.tsv data/test.masked_primer_indices.txt > data/test.trimmed.masked.bam data/test.trimmed.masked.bam.bai > data/test.trimmed.sorted.bam.bai data/test.unmapped.sorted.bam.bai > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > dh_autoreconf_clean > dh_clean > dpkg-source -b . > dpkg-source: info: using source format '3.0 (quilt)' > dpkg-source: info: building ivar using existing ./ivar_1.4.2+dfsg.orig.tar.xz > dpkg-source: info: using patch list from debian/patches/series > dpkg-source: warning: ignoring deletion of file config.h.in, use > --include-removal to override > dpkg-source: warning: executable mode 0755 of 'config.status' will not be > represented in diff > dpkg-source: error: cannot represent change to data/trim_isize.bam: binary > file contents changed > dpkg-source: error: add data/trim_isize.bam in debian/source/include-binaries > if you want to store the modified binary in the debian tarball > dpkg-source: warning: newly created empty file 'src/.dirstamp' will not be > represented in diff > dpkg-source: error: cannot represent change to src/alignment.o: binary file > contents changed > dpkg-source: error: add src/alignment.o in debian/source/include-binaries if > you want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to src/allele_functions.o: binary > file contents changed > dpkg-source: error: add src/allele_functions.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to src/call_consensus_pileup.o: > binary file contents changed > dpkg-source: error: add src/call_consensus_pileup.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to src/call_variants.o: binary > file contents changed > dpkg-source: error: add src/call_variants.o in debian/source/include-binaries > if you want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to src/get_common_variants.o: > binary file contents changed > dpkg-source: error: add src/get_common_variants.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to src/get_masked_amplicons.o: > binary file contents changed > dpkg-source: error: add src/get_masked_amplicons.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to src/interval_tree.o: binary > file contents changed > dpkg-source: error: add src/interval_tree.o in debian/source/include-binaries > if you want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to src/ivar: binary file contents > changed > dpkg-source: error: add src/ivar in debian/source/include-binaries if you > want to store the modified binary in the debian tarball > dpkg-source: warning: executable mode 0755 of 'src/ivar' will not be > represented in diff > dpkg-source: error: cannot represent change to src/ivar.o: binary file > contents changed > dpkg-source: error: add src/ivar.o in debian/source/include-binaries if you > want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to src/parse_gff.o: binary file > contents changed > dpkg-source: error: add src/parse_gff.o in debian/source/include-binaries if > you want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to src/primer_bed.o: binary file > contents changed > dpkg-source: error: add src/primer_bed.o in debian/source/include-binaries if > you want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to src/ref_seq.o: binary file > contents changed > dpkg-source: error: add src/ref_seq.o in debian/source/include-binaries if > you want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to > src/remove_reads_from_amplicon.o: binary file contents changed > dpkg-source: error: add src/remove_reads_from_amplicon.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to src/suffix_tree.o: binary file > contents changed > dpkg-source: error: add src/suffix_tree.o in debian/source/include-binaries > if you want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to src/trim_primer_quality.o: > binary file contents changed > dpkg-source: error: add src/trim_primer_quality.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/check_allele_depth: > binary file contents changed > dpkg-source: error: add tests/check_allele_depth in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_allele_depth' will > not be represented in diff > dpkg-source: error: cannot represent change to tests/check_amplicon_search: > binary file contents changed > dpkg-source: error: add tests/check_amplicon_search in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_amplicon_search' > will not be represented in diff > dpkg-source: error: cannot represent change to tests/check_common_variants: > binary file contents changed > dpkg-source: error: add tests/check_common_variants in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_common_variants' > will not be represented in diff > dpkg-source: error: cannot represent change to tests/check_consensus: binary > file contents changed > dpkg-source: error: add tests/check_consensus in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_consensus' will > not be represented in diff > dpkg-source: error: cannot represent change to > tests/check_consensus_min_depth: binary file contents changed > dpkg-source: error: add tests/check_consensus_min_depth in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of > 'tests/check_consensus_min_depth' will not be represented in diff > dpkg-source: error: cannot represent change to > tests/check_consensus_min_insert_threshold: binary file contents changed > dpkg-source: error: add tests/check_consensus_min_insert_threshold in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of > 'tests/check_consensus_min_insert_threshold' will not be represented in diff > dpkg-source: error: cannot represent change to tests/check_consensus_seq_id: > binary file contents changed > dpkg-source: error: add tests/check_consensus_seq_id in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_consensus_seq_id' > will not be represented in diff > dpkg-source: error: cannot represent change to > tests/check_consensus_threshold: binary file contents changed > dpkg-source: error: add tests/check_consensus_threshold in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of > 'tests/check_consensus_threshold' will not be represented in diff > dpkg-source: error: cannot represent change to tests/check_getmasked: binary > file contents changed > dpkg-source: error: add tests/check_getmasked in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_getmasked' will > not be represented in diff > dpkg-source: error: cannot represent change to tests/check_interval_tree: > binary file contents changed > dpkg-source: error: add tests/check_interval_tree in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_interval_tree' > will not be represented in diff > dpkg-source: error: cannot represent change to tests/check_isize_trim: binary > file contents changed > dpkg-source: error: add tests/check_isize_trim in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_isize_trim' will > not be represented in diff > dpkg-source: error: cannot represent change to tests/check_primer_bed: binary > file contents changed > dpkg-source: error: add tests/check_primer_bed in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_primer_bed' will > not be represented in diff > dpkg-source: error: cannot represent change to tests/check_primer_trim: > binary file contents changed > dpkg-source: error: add tests/check_primer_trim in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_primer_trim' will > not be represented in diff > dpkg-source: error: cannot represent change to > tests/check_primer_trim_edge_cases: binary file contents changed > dpkg-source: error: add tests/check_primer_trim_edge_cases in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of > 'tests/check_primer_trim_edge_cases' will not be represented in diff > dpkg-source: error: cannot represent change to tests/check_quality_trim: > binary file contents changed > dpkg-source: error: add tests/check_quality_trim in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_quality_trim' will > not be represented in diff > dpkg-source: error: cannot represent change to tests/check_quality_trim.o: > binary file contents changed > dpkg-source: error: add tests/check_quality_trim.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/check_removereads: > binary file contents changed > dpkg-source: error: add tests/check_removereads in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_removereads' will > not be represented in diff > dpkg-source: error: cannot represent change to tests/check_trim: binary file > contents changed > dpkg-source: error: add tests/check_trim in debian/source/include-binaries if > you want to store the modified binary in the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_trim' will not be > represented in diff > dpkg-source: error: cannot represent change to tests/check_unpaired_trim: > binary file contents changed > dpkg-source: error: add tests/check_unpaired_trim in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_unpaired_trim' > will not be represented in diff > dpkg-source: error: cannot represent change to tests/check_variants: binary > file contents changed > dpkg-source: error: add tests/check_variants in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: executable mode 0755 of 'tests/check_variants' will not > be represented in diff > dpkg-source: error: cannot represent change to tests/test_allele_depth.o: > binary file contents changed > dpkg-source: error: add tests/test_allele_depth.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_amplicon_search.o: > binary file contents changed > dpkg-source: error: add tests/test_amplicon_search.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > tests/test_call_consensus_from_plup.o: binary file contents changed > dpkg-source: error: add tests/test_call_consensus_from_plup.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_common_variants.o: > binary file contents changed > dpkg-source: error: add tests/test_common_variants.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > tests/test_consensus_min_depth.o: binary file contents changed > dpkg-source: error: add tests/test_consensus_min_depth.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > tests/test_consensus_min_insert_threshold.o: binary file contents changed > dpkg-source: error: add tests/test_consensus_min_insert_threshold.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_consensus_seq_id.o: > binary file contents changed > dpkg-source: error: add tests/test_consensus_seq_id.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > tests/test_consensus_threshold.o: binary file contents changed > dpkg-source: error: add tests/test_consensus_threshold.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_getmasked.o: binary > file contents changed > dpkg-source: error: add tests/test_getmasked.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_interval_tree.o: > binary file contents changed > dpkg-source: error: add tests/test_interval_tree.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_isize_trim.o: > binary file contents changed > dpkg-source: error: add tests/test_isize_trim.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_primer_bed.o: > binary file contents changed > dpkg-source: error: add tests/test_primer_bed.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_primer_trim.o: > binary file contents changed > dpkg-source: error: add tests/test_primer_trim.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > tests/test_primer_trim_edge_cases.o: binary file contents changed > dpkg-source: error: add tests/test_primer_trim_edge_cases.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_removereads.o: > binary file contents changed > dpkg-source: error: add tests/test_removereads.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_trim.o: binary file > contents changed > dpkg-source: error: add tests/test_trim.o in debian/source/include-binaries > if you want to store the modified binary in the debian tarball > dpkg-source: error: cannot represent change to tests/test_unpaired_trim.o: > binary file contents changed > dpkg-source: error: add tests/test_unpaired_trim.o in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to tests/test_variants.o: binary > file contents changed > dpkg-source: error: add tests/test_variants.o 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 29 > > 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/ivar_1.4.2+dfsg-2_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.
