Source: libgoby-java Version: 3.3.1+dfsg2-9 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 libgoby-java > dpkg-buildpackage: info: source version 3.3.1+dfsg2-9 > dpkg-buildpackage: info: source distribution unstable > dpkg-buildpackage: info: source changed by Pierre Gruet <[email protected]> > dpkg-source --before-build . > debian/rules clean > dh clean --with javahelper > debian/rules override_dh_auto_clean > make[1]: Entering directory '/<<PKGBUILDDIR>>' > dh_auto_clean > mh_patchpoms -plibgoby-io-java --debian-build --keep-pom-version > --maven-repo=/<<BUILDDIR>>/libgoby-java-3.3.1\+dfsg2/debian/maven-repo > /usr/lib/jvm/default-java/bin/java -noverify -cp > /usr/share/maven/boot/plexus-classworlds-2.x.jar > -Dmaven.home=/usr/share/maven > -Dmaven.multiModuleProjectDirectory=/<<BUILDDIR>>/libgoby-java-3.3.1\+dfsg2 > -Dclassworlds.conf=/etc/maven/m2-debian.conf > org.codehaus.plexus.classworlds.launcher.Launcher > -s/etc/maven/settings-debian.xml > -Ddebian.dir=/<<BUILDDIR>>/libgoby-java-3.3.1\+dfsg2/debian > -Dmaven.repo.local=/<<BUILDDIR>>/libgoby-java-3.3.1\+dfsg2/debian/maven-repo > --batch-mode clean > OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were > deprecated in JDK 13 and will likely be removed in a future release. > [0m[0m[INFO] Scanning for projects... > [WARNING] > [WARNING] Some problems were encountered while building the effective model > for org.campagnelab.goby:goby-distribution:jar:3.3.1 > [WARNING] 'dependencies.dependency.systemPath' for > org.rosuda.REngine:REngine:jar should use a variable instead of a hard-coded > path /usr/lib/R/site-library/rJava/jri/JRI.jar @ line 227, column 16 > [WARNING] 'dependencies.dependency.systemPath' for > com.github.broadinstitute:picard:jar should use a variable instead of a > hard-coded path /usr/share/java/picard.jar @ line 293, column 16 > [WARNING] 'dependencies.dependency.(groupId:artifactId:type:classifier)' must > be unique: it.unimi.dsi:dsiutils:jar -> duplicate declaration of version > debian @ line 295, column 15 > [WARNING] > [WARNING] Some problems were encountered while building the effective model > for org.campagnelab.goby:goby-io:jar:3.3.1 > [WARNING] 'dependencies.dependency.(groupId:artifactId:type:classifier)' must > be unique: com.google.protobuf:protobuf-java:jar -> duplicate declaration of > version debian @ line 350, column 15 > [WARNING] 'dependencies.dependency.systemPath' for org.itadaki:bzip2:jar > should use a variable instead of a hard-coded path > /usr/share/java/jbzip2-0.9.1.jar @ line 391, column 16 > [WARNING] 'build.plugins.plugin.(groupId:artifactId)' must be unique but > found duplicate declaration of plugin > org.apache.maven.plugins:maven-antrun-plugin @ line 291, column 12 > [WARNING] > [WARNING] It is highly recommended to fix these problems because they > threaten the stability of your build. > [WARNING] > [WARNING] For this reason, future Maven versions might no longer support > building such malformed projects. > [WARNING] > [INFO] > ------------------------------------------------------------------------ > [INFO] Reactor Build Order: > [INFO] > [INFO] Goby Framework > [pom] > [INFO] Goby I/O > [jar] > [INFO] Goby Full Distribution > [jar] > [INFO] > [INFO] ----------------< org.campagnelab.goby:goby-framework > >----------------- > [INFO] Building Goby Framework 3.3.1 > [1/3] > [INFO] --------------------------------[ pom > ]--------------------------------- > [WARNING] The artifact org.apache.maven.plugins:maven-clean-plugin:jar:2.5 > has been relocated to org.apache.maven.plugins:maven-clean-plugin:jar:3.2.0 > [INFO] > [INFO] --- maven-clean-plugin:3.2.0:clean (default-clean) @ goby-framework --- > [INFO] Deleting /<<PKGBUILDDIR>>/target > [INFO] > [INFO] --------------------< org.campagnelab.goby:goby-io > >-------------------- > [INFO] Building Goby I/O 3.3.1 > [2/3] > [INFO] --------------------------------[ jar > ]--------------------------------- > [INFO] > [INFO] --- maven-clean-plugin:3.2.0:clean (default-clean) @ goby-io --- > [INFO] Deleting /<<PKGBUILDDIR>>/goby-io/target > [INFO] > [INFO] ---------------< org.campagnelab.goby:goby-distribution > >--------------- > [INFO] Building Goby Full Distribution 3.3.1 > [3/3] > [INFO] --------------------------------[ jar > ]--------------------------------- > [INFO] > [INFO] --- maven-clean-plugin:3.2.0:clean (default-clean) @ goby-distribution > --- > [INFO] Deleting /<<PKGBUILDDIR>>/goby-distribution/target > [INFO] > ------------------------------------------------------------------------ > [INFO] Reactor Summary for Goby Framework 3.3.1: > [INFO] > [INFO] Goby Framework ..................................... SUCCESS [ 0.259 > s] > [INFO] Goby I/O ........................................... SUCCESS [ 0.228 > s] > [INFO] Goby Full Distribution ............................. SUCCESS [ 0.204 > s] > [INFO] > ------------------------------------------------------------------------ > [INFO] BUILD SUCCESS > [INFO] > ------------------------------------------------------------------------ > [INFO] Total time: 0.996 s > [INFO] Finished at: 2023-08-12T08:12:09Z > [INFO] > ------------------------------------------------------------------------ > [0m[0m bash -c "for dir in \$(find . -name target -type d); do if [ -f > \$(echo \$dir | sed -e s/target\$/pom.xml/) ]; then rm -Rf \$dir; fi done" > mh_unpatchpoms -plibgoby-io-java > rm -f goby-distribution/test-data > rm -rf test-results/ > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > jh_clean > dh_clean > dpkg-source -b . > dpkg-source: info: using source format '3.0 (quilt)' > dpkg-source: info: building libgoby-java using existing > ./libgoby-java_3.3.1+dfsg2.orig.tar.xz > dpkg-source: info: using patch list from debian/patches/series > dpkg-source: warning: file libgoby-java-3.3.1+dfsg2/GOBY_COMMIT.properties > has no final newline (either original or modified version) > dpkg-source: error: cannot represent change to > goby-distribution/test-results/alignments-splices/spliced-1.entries: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/alignments-splices/spliced-1.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/alignments-splices/spliced-1.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/alignments-splices/spliced-1.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/alignments-splices/spliced-1.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/alignments-splices/spliced-1.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/alignments-splices/spliced-1.stats' will not > be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/alignments/align-101-tmh.tmh: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/alignments/align-101-tmh.tmh in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/align-specific-sample.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/align-specific-sample.entries > in debian/source/include-binaries if you want to store the modified binary > in the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/align-specific-sample.header: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/align-specific-sample.header > in debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/align-specific-sample.index: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/align-specific-sample.index > in debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/align-specific-sample.stats' > will not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen0-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen0-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen0-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen0-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen0-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen0-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen0-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen0.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen0.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen0.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen0.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen0.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen0.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen0.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen1-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen1-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen1-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen1-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen1-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen1-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen1-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen1.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen1.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen1.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen1.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen1.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen1.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen1.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen2-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen2-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen2-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen2-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen2-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen2-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen2-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen2.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen2.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen2.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen2.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen2.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen2.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen2.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen3-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen3-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen3-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen3-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen3-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen3-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen3-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen3.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen3.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen3.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen3.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen3.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen3.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen3.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen4-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen4-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen4-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen4-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen4-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen4-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen4-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen4.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen4.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen4.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen4.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen4.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen4.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen4.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen5-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen5-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen5-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen5-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen5-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen5-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen5-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen5.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen5.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen5.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen5.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen5.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen5.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen5.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen6-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen6-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen6-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen6-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen6-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen6-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen6-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen6.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen6.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen6.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen6.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen6.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen6.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen6.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen7-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen7-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen7-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen7-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen7-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen7-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen7-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen7.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen7.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen7.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen7.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen7.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen7.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen7.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen8-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen8-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen8-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen8-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen8-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen8-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen8-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen8.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen8.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen8.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen8.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen8.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen8.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen8.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen9-indels.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen9-indels.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen9-indels.header: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen9-indels.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen9-indels.index: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen9-indels.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen9-indels.stats' will > not be represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen9.entries: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen9.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen9.header: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen9.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/discover-variants/basen9.index: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/discover-variants/basen9.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/discover-variants/basen9.stats' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/permutations/append-1.perm: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/permutations/append-1.perm in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/permutations/breakpoint-1.perm' will not be > represented in diff > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/permutations/breakpoint-2.perm' will not be > represented in diff > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/permutations/breakpoint-3.perm' will not be > represented in diff > dpkg-source: error: cannot represent change to > goby-distribution/test-results/permutations/test-doubleLocal.perm: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/permutations/test-doubleLocal.perm in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/permutations/test-multipleChunks-1.perm: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/permutations/test-multipleChunks-1.perm in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/permutations/test-multipleChunks-2.perm: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/permutations/test-multipleChunks-2.perm in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/permutations/test-simple.perm: binary file > contents changed > dpkg-source: error: add > goby-distribution/test-results/permutations/test-simple.perm in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: file > libgoby-java-3.3.1+dfsg2/goby-distribution/test-results/read-sets/set-1.filter > has no final newline (either original or modified version) > dpkg-source: error: cannot represent change to > goby-distribution/test-results/read-sets/set-2.filter: binary file contents > changed > dpkg-source: error: add goby-distribution/test-results/read-sets/set-2.filter > in debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/reads/written-101.bin: binary file contents > changed > dpkg-source: error: add goby-distribution/test-results/reads/written-101.bin > in debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/splicedsamhelper/tricky-spliced-17.entries: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/splicedsamhelper/tricky-spliced-17.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/splicedsamhelper/tricky-spliced-17.header: > binary file contents changed > dpkg-source: error: add > goby-distribution/test-results/splicedsamhelper/tricky-spliced-17.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > goby-distribution/test-results/splicedsamhelper/tricky-spliced-17.tmh: binary > file contents changed > dpkg-source: error: add > goby-distribution/test-results/splicedsamhelper/tricky-spliced-17.tmh in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'goby-distribution/test-results/stats-writer/not-tested.vcf' will not be > represented in diff > dpkg-source: error: cannot represent change to > test-data/alignments/pileup/1.entries: binary file contents changed > dpkg-source: error: add test-data/alignments/pileup/1.entries in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > test-data/alignments/pileup/1.header: binary file contents changed > dpkg-source: error: add test-data/alignments/pileup/1.header in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: error: cannot represent change to > test-data/alignments/pileup/1.index: binary file contents changed > dpkg-source: error: add test-data/alignments/pileup/1.index in > debian/source/include-binaries if you want to store the modified binary in > the debian tarball > dpkg-source: warning: newly created empty file > 'test-data/alignments/pileup/1.stats' will not be represented in diff > dpkg-source: warning: newly created empty file > 'test-data/seq-var-test/kevin-synth/sorted-seq-var-reads-gsnap.perm' will not > be represented in diff > 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/libgoby-java_3.3.1+dfsg2-9_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.
