Diff of the two buildlogs: -- --- b1/build.log 2025-09-07 04:30:06.836683385 +0000 +++ b2/build.log 2025-09-07 04:37:52.001241490 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Oct 9 22:50:13 -12 2026 -I: pbuilder-time-stamp: 1791629413 +I: Current time: Sun Sep 7 18:30:39 +14 2025 +I: pbuilder-time-stamp: 1757219439 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -39,53 +39,85 @@ dpkg-source: info: applying waiting_launcher.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2345875/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/442539/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Sep 7 04:31 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/442539/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/442539/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.3.3(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='a13a2b0dd171474f8287f87b787a40bb' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='2345875' - PS1='# ' - PS2='> ' + INVOCATION_ID=b88db95c657446f18eccd76fd15e8c39 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=442539 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.vrAIwGhC/pbuilderrc_HCG7 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.vrAIwGhC/b1 --logfile b1/build.log jalview_2.11.5.0+dfsg-1.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.vrAIwGhC/pbuilderrc_uI02 --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.vrAIwGhC/b2 --logfile b2/build.log jalview_2.11.5.0+dfsg-1.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2345875/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/442539/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -655,7 +687,7 @@ Get: 458 http://deb.debian.org/debian unstable/main arm64 libmockito-java all 3.3.0-2 [510 kB] Get: 459 http://deb.debian.org/debian unstable/main arm64 libvamsas-client-java all 0.2+dfsg-2 [584 kB] Get: 460 http://deb.debian.org/debian unstable/main arm64 varna all 3-93+ds-7 [801 kB] -Fetched 388 MB in 3s (130 MB/s) +Fetched 388 MB in 9s (44.1 MB/s) Preconfiguring packages ... Selecting previously unselected package libsystemd-shared:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20020 files and directories currently installed.) @@ -2162,8 +2194,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Oct 10 10:51:16 UTC 2026. -Universal Time is now: Sat Oct 10 10:51:16 UTC 2026. +Local time is now: Sun Sep 7 04:33:04 UTC 2025. +Universal Time is now: Sun Sep 7 04:33:04 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:arm64 (1.17.0-2+b1) ... @@ -2752,7 +2784,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/jalview-2.11.5.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../jalview_2.11.5.0+dfsg-1_source.changes +I: user script /srv/workspace/pbuilder/442539/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/442539/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/jalview-2.11.5.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../jalview_2.11.5.0+dfsg-1_source.changes dpkg-buildpackage: info: source package jalview dpkg-buildpackage: info: source version 2.11.5.0+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -2766,7 +2802,7 @@ sh -c "find . -wholename .*build/debian | xargs echo | sed -e 's^build/tmp^build^g' | xargs rm -Rf" rm -Rf /build/reproducible-path/jalview-2.11.5.0\+dfsg/.gradle /build/reproducible-path/jalview-2.11.5.0\+dfsg/buildSrc/.gradle .m2 jh_clean -Duplicate specification "u=s" for option "u" +Duplicate specification "unlink|u" for option "u" debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/jalview-2.11.5.0+dfsg' # Removing our handmade pom. @@ -2809,18 +2845,18 @@ To honour the JVM settings for this build a new JVM will be forked. Please consider using the daemon: https://docs.gradle.org/4.4.1/userguide/gradle_daemon.html. Starting process 'Gradle build daemon'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/daemon/4.4.1 Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java --add-opens java.base/java.lang=ALL-UNNAMED -Xbootclasspath/a:/usr/share/java/gradle-helper-hook.jar:/usr/share/java/maven-repo-helper.jar -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -cp /usr/share/gradle/lib/gradle-launcher-4.4.1.jar org.gradle.launcher.daemon.bootstrap.GradleDaemon 4.4.1 Successfully started process 'Gradle build daemon' -An attempt to start the daemon took 0.886 secs. -The client will now receive all logging from the daemon (pid: 2384177). The daemon log file: /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/daemon/4.4.1/daemon-2384177.out.log +An attempt to start the daemon took 2.266 secs. +The client will now receive all logging from the daemon (pid: 526838). The daemon log file: /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/daemon/4.4.1/daemon-526838.out.log Daemon will be stopped at the end of the build stopping after processing Closing daemon's stdin at end of input. The daemon will no longer process any standard input. Using 12 worker leases. -Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@60d04303 -Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@60d04303 -Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@3ed3c464 +Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@6a33738c +Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@6a33738c +Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@40a81f64 Starting Build Compiling initialization script '/build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/init.d/init.gradle' using SubsetScriptTransformer. -Creating new cache for metadata-1.1/results, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@32a85085 +Creating new cache for metadata-1.1/results, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@6b9ae8cc Compiling initialization script '/build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/init.d/init.gradle' using BuildScriptTransformer. Compiling settings file '/build/reproducible-path/jalview-2.11.5.0+dfsg/settings.gradle' using SubsetScriptTransformer. Compiling settings file '/build/reproducible-path/jalview-2.11.5.0+dfsg/settings.gradle' using BuildScriptTransformer. @@ -2847,45 +2883,45 @@ Linking the generated javadoc to the system JDK API documentation All projects evaluated. Selected primary task 'jar' from project : -Creating new cache for annotation-processors, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@5529870c +Creating new cache for annotation-processors, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@59a2d7cc Tasks to be executed: [task ':copyHelp', task ':buildIndices', task ':copyResources', task ':copyChannelResources', task ':createBuildProperties', task ':buildResources', task ':copyDocs', task ':convertMdFiles', task ':releasesTemplates', task ':prepare', task ':compileJava', task ':processResources', task ':classes', task ':debianMavenPom', task ':jar'] -Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@3ed3c464 -Creating new cache for taskHistory, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@6b85e264 -Creating new cache for outputFiles, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@1d9d4487 -:copyHelp (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@40a81f64 +Creating new cache for taskHistory, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@40c64749 +Creating new cache for outputFiles, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@516d2d72 +:copyHelp (Thread[#59,Task worker for ':',5,main]) started. :copyHelp -Putting task artifact state for task ':copyHelp' into context took 0.0 secs. -Up-to-date check for task ':copyHelp' took 0.227 secs. It is not up-to-date because: +Putting task artifact state for task ':copyHelp' into context took 0.001 secs. +Up-to-date check for task ':copyHelp' took 0.839 secs. It is not up-to-date because: No history is available. -:copyHelp (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 1.065 secs. -:buildIndices (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:copyHelp (Thread[#59,Task worker for ':',5,main]) completed. Took 2.782 secs. +:buildIndices (Thread[#59,Task worker for ':',5,main]) started. :buildIndices Putting task artifact state for task ':buildIndices' into context took 0.0 secs. -Up-to-date check for task ':buildIndices' took 0.099 secs. It is not up-to-date because: +Up-to-date check for task ':buildIndices' took 0.247 secs. It is not up-to-date because: No history is available. Starting process 'command '/usr/lib/jvm/java-21-openjdk-arm64/bin/java''. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/resources/help_build/help Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -cp /build/reproducible-path/jalview-2.11.5.0+dfsg/classes:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/varna.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/vamsas-client.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/slf4j-api.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/org.jfree.svg.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/min-jaba-client.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/miglayout.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/log4j-core.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/log4j-api.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/log4j-1.2.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jswingreader.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jsoup.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/json-simple.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/json.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jsearch-indexer.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/Jmol.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jh.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jetty9-server.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jetty9-util.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jersey1-core.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jersey1-client.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jaxrs-api.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jaxb-api.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/intervalstorej.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/httpmime.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/httpcore.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/httpclient.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/htsjdk.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/groovy-all.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/commons-math3.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/commons-discovery.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/biojava6-ontology.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/biojava6-jcolorbrewer.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/axis-jaxrpc.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/axis.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/apache-mime4j-core.jar com.sun.java.help.search.Indexer html Successfully started process 'command '/usr/lib/jvm/java-21-openjdk-arm64/bin/java'' -:buildIndices (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.864 secs. -:copyResources (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:buildIndices (Thread[#59,Task worker for ':',5,main]) completed. Took 3.025 secs. +:copyResources (Thread[#59,Task worker for ':',5,main]) started. :copyResources Putting task artifact state for task ':copyResources' into context took 0.0 secs. -Up-to-date check for task ':copyResources' took 0.018 secs. It is not up-to-date because: +Up-to-date check for task ':copyResources' took 0.081 secs. It is not up-to-date because: No history is available. -:copyResources (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.052 secs. -:copyChannelResources (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:copyResources (Thread[#59,Task worker for ':',5,main]) completed. Took 0.221 secs. +:copyChannelResources (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :copyChannelResources Putting task artifact state for task ':copyChannelResources' into context took 0.0 secs. -Up-to-date check for task ':copyChannelResources' took 0.007 secs. It is not up-to-date because: +Up-to-date check for task ':copyChannelResources' took 0.038 secs. It is not up-to-date because: No history is available. -:copyChannelResources (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.028 secs. +:copyChannelResources (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.082 secs. :createBuildProperties (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :createBuildProperties -Putting task artifact state for task ':createBuildProperties' into context took 0.0 secs. +Putting task artifact state for task ':createBuildProperties' into context took 0.001 secs. Up-to-date check for task ':createBuildProperties' took 0.0 secs. It is not up-to-date because: Task has not declared any outputs. Starting process 'command 'sh''. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: sh debian/write_build_properties_file.sh Successfully started process 'command 'sh'' -:createBuildProperties (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.122 secs. +:createBuildProperties (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.322 secs. :buildResources (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :buildResources Skipping task ':buildResources' as it has no actions. @@ -2893,9 +2929,9 @@ :copyDocs (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :copyDocs Putting task artifact state for task ':copyDocs' into context took 0.0 secs. -Up-to-date check for task ':copyDocs' took 0.011 secs. It is not up-to-date because: +Up-to-date check for task ':copyDocs' took 0.07 secs. It is not up-to-date because: No history is available. -:copyDocs (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.05 secs. +:copyDocs (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.237 secs. :convertMdFiles (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :convertMdFiles Skipping task ':convertMdFiles' as it has no actions. @@ -2913,7 +2949,7 @@ Putting task artifact state for task ':compileJava' into context took 0.0 secs. file or directory '/build/reproducible-path/jalview-2.11.5.0+dfsg/src/main/java', not found file or directory '/build/reproducible-path/jalview-2.11.5.0+dfsg/src/main/java', not found -Up-to-date check for task ':compileJava' took 1.154 secs. It is not up-to-date because: +Up-to-date check for task ':compileJava' took 4.57 secs. It is not up-to-date because: No history is available. Setting target compatibility to 11 All input files are considered out-of-date for incremental task ':compileJava'. @@ -2966,32 +3002,32 @@ Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 14 warnings -:compileJava (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 16.116 secs. +:compileJava (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 53.047 secs. :processResources (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :processResources Putting task artifact state for task ':processResources' into context took 0.0 secs. -Up-to-date check for task ':processResources' took 0.082 secs. It is not up-to-date because: +Up-to-date check for task ':processResources' took 0.17 secs. It is not up-to-date because: No history is available. -:processResources (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.33 secs. -:classes (Thread[#62,Task worker for ':' Thread 4,5,main]) started. +:processResources (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.847 secs. +:classes (Thread[#68,Task worker for ':' Thread 10,5,main]) started. :classes Skipping task ':classes' as it has no actions. -:classes (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.0 secs. -:debianMavenPom (Thread[#62,Task worker for ':' Thread 4,5,main]) started. +:classes (Thread[#68,Task worker for ':' Thread 10,5,main]) completed. Took 0.0 secs. +:debianMavenPom (Thread[#68,Task worker for ':' Thread 10,5,main]) started. :debianMavenPom Putting task artifact state for task ':debianMavenPom' into context took 0.0 secs. -Up-to-date check for task ':debianMavenPom' took 0.0 secs. It is not up-to-date because: +Up-to-date check for task ':debianMavenPom' took 0.008 secs. It is not up-to-date because: No history is available. Generating pom file /build/reproducible-path/jalview-2.11.5.0+dfsg/build/debian/jalview.pom -:debianMavenPom (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.132 secs. -:jar (Thread[#64,Task worker for ':' Thread 6,5,main]) started. +:debianMavenPom (Thread[#68,Task worker for ':' Thread 10,5,main]) completed. Took 0.297 secs. +:jar (Thread[#68,Task worker for ':' Thread 10,5,main]) started. :jar Putting task artifact state for task ':jar' into context took 0.0 secs. -Up-to-date check for task ':jar' took 0.157 secs. It is not up-to-date because: +Up-to-date check for task ':jar' took 0.21 secs. It is not up-to-date because: No history is available. -:jar (Thread[#64,Task worker for ':' Thread 6,5,main]) completed. Took 1.344 secs. +:jar (Thread[#68,Task worker for ':' Thread 10,5,main]) completed. Took 3.658 secs. -BUILD SUCCESSFUL in 27s +BUILD SUCCESSFUL in 1m 25s 10 actionable tasks: 10 executed debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/jalview-2.11.5.0+dfsg' @@ -3013,17 +3049,17 @@ To honour the JVM settings for this build a new JVM will be forked. Please consider using the daemon: https://docs.gradle.org/4.4.1/userguide/gradle_daemon.html. Starting process 'Gradle build daemon'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/daemon/4.4.1 Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java --add-opens java.base/java.lang=ALL-UNNAMED -Xbootclasspath/a:/usr/share/java/gradle-helper-hook.jar:/usr/share/java/maven-repo-helper.jar -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -cp /usr/share/gradle/lib/gradle-launcher-4.4.1.jar org.gradle.launcher.daemon.bootstrap.GradleDaemon 4.4.1 Successfully started process 'Gradle build daemon' -An attempt to start the daemon took 0.832 secs. -The client will now receive all logging from the daemon (pid: 2404451). The daemon log file: /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/daemon/4.4.1/daemon-2404451.out.log +An attempt to start the daemon took 3.029 secs. +The client will now receive all logging from the daemon (pid: 545983). The daemon log file: /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/daemon/4.4.1/daemon-545983.out.log Daemon will be stopped at the end of the build stopping after processing Closing daemon's stdin at end of input. The daemon will no longer process any standard input. Using 12 worker leases. -Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@7114ece2 -Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@7114ece2 -Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@18bb7126 +Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@3f264c3f +Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@3f264c3f +Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@27579cd3 Starting Build -Creating new cache for metadata-1.1/results, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@43bd48ca +Creating new cache for metadata-1.1/results, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@1320d66 Settings evaluated using settings file '/build/reproducible-path/jalview-2.11.5.0+dfsg/settings.gradle'. Projects loaded. Root project using build file '/build/reproducible-path/jalview-2.11.5.0+dfsg/build.gradle'. Included projects: [root project 'jalview'] @@ -3043,77 +3079,77 @@ Linking the generated javadoc to the system JDK API documentation All projects evaluated. Selected primary task 'test' from project : -Creating new cache for annotation-processors, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@5f639307 +Creating new cache for annotation-processors, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@6fd9c980 Tasks to be executed: [task ':copyHelp', task ':buildIndices', task ':copyResources', task ':copyChannelResources', task ':createBuildProperties', task ':buildResources', task ':copyDocs', task ':convertMdFiles', task ':releasesTemplates', task ':prepare', task ':compileJava', task ':compileTestJava', task ':processTestResources', task ':testClasses', task ':testTask0', task ':testTask1', task ':testTask2', task ':testTask3', task ':test'] -Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@18bb7126 -Creating new cache for taskHistory, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@30cc335d -Creating new cache for outputFiles, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@7032f41 -:copyHelp (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@27579cd3 +Creating new cache for taskHistory, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@761e5b3d +Creating new cache for outputFiles, path /build/reproducible-path/jalview-2.11.5.0+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@e4dcbc0 +:copyHelp (Thread[#59,Task worker for ':',5,main]) started. :copyHelp Putting task artifact state for task ':copyHelp' into context took 0.001 secs. -Skipping task ':copyHelp' as it is up-to-date (took 0.137 secs). +Skipping task ':copyHelp' as it is up-to-date (took 0.503 secs). :copyHelp UP-TO-DATE -:copyHelp (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.15 secs. -:buildIndices (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:copyHelp (Thread[#59,Task worker for ':',5,main]) completed. Took 0.531 secs. +:buildIndices (Thread[#59,Task worker for ':',5,main]) started. :buildIndices Putting task artifact state for task ':buildIndices' into context took 0.0 secs. -Up-to-date check for task ':buildIndices' took 0.313 secs. It is not up-to-date because: +Up-to-date check for task ':buildIndices' took 1.291 secs. It is not up-to-date because: Input property 'classpath' file /build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/Jmol.jar has been removed. Input property 'classpath' file /build/reproducible-path/jalview-2.11.5.0+dfsg/classes/com/github/reinert/jjschema/Attributes.class has been added. Input property 'classpath' file /build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/apache-mime4j-core.jar has been removed. Starting process 'command '/usr/lib/jvm/java-21-openjdk-arm64/bin/java''. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/resources/help_build/help Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -cp /build/reproducible-path/jalview-2.11.5.0+dfsg/classes:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/testng.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/mockito-core.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/junit4.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jcommander.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jaxb-impl.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/guava.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/varna.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/vamsas-client.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/slf4j-api.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/org.jfree.svg.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/min-jaba-client.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/miglayout.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/log4j-core.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/log4j-api.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/log4j-1.2.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jswingreader.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jsoup.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/json-simple.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/json.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jsearch-indexer.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/Jmol.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jh.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jetty9-server.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jetty9-util.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jersey1-core.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jersey1-client.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jaxrs-api.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/jaxb-api.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/intervalstorej.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/httpmime.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/httpcore.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/httpclient.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/htsjdk.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/groovy-all.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/commons-math3.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/commons-discovery.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/biojava6-ontology.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/biojava6-jcolorbrewer.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/axis-jaxrpc.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/axis.jar:/build/reproducible-path/jalview-2.11.5.0+dfsg/cpJars/apache-mime4j-core.jar com.sun.java.help.search.Indexer html Successfully started process 'command '/usr/lib/jvm/java-21-openjdk-arm64/bin/java'' -:buildIndices (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 1.086 secs. -:copyResources (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:buildIndices (Thread[#59,Task worker for ':',5,main]) completed. Took 4.52 secs. +:copyResources (Thread[#59,Task worker for ':',5,main]) started. :copyResources Putting task artifact state for task ':copyResources' into context took 0.0 secs. -Skipping task ':copyResources' as it is up-to-date (took 0.019 secs). +Skipping task ':copyResources' as it is up-to-date (took 0.141 secs). :copyResources UP-TO-DATE -:copyResources (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.021 secs. +:copyResources (Thread[#59,Task worker for ':',5,main]) completed. Took 0.153 secs. :copyChannelResources (Thread[#60,Task worker for ':' Thread 2,5,main]) started. :copyChannelResources Putting task artifact state for task ':copyChannelResources' into context took 0.0 secs. -Skipping task ':copyChannelResources' as it is up-to-date (took 0.006 secs). +Skipping task ':copyChannelResources' as it is up-to-date (took 0.027 secs). :copyChannelResources UP-TO-DATE -:copyChannelResources (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.008 secs. -:createBuildProperties (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:copyChannelResources (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.029 secs. +:createBuildProperties (Thread[#69,Task worker for ':' Thread 11,5,main]) started. :createBuildProperties -Putting task artifact state for task ':createBuildProperties' into context took 0.003 secs. +Putting task artifact state for task ':createBuildProperties' into context took 0.001 secs. Up-to-date check for task ':createBuildProperties' took 0.0 secs. It is not up-to-date because: Task has not declared any outputs. Starting process 'command 'sh''. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: sh debian/write_build_properties_file.sh Successfully started process 'command 'sh'' -:createBuildProperties (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.132 secs. -:buildResources (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:createBuildProperties (Thread[#69,Task worker for ':' Thread 11,5,main]) completed. Took 0.476 secs. +:buildResources (Thread[#69,Task worker for ':' Thread 11,5,main]) started. :buildResources Skipping task ':buildResources' as it has no actions. -:buildResources (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:copyDocs (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:buildResources (Thread[#69,Task worker for ':' Thread 11,5,main]) completed. Took 0.0 secs. +:copyDocs (Thread[#69,Task worker for ':' Thread 11,5,main]) started. :copyDocs Putting task artifact state for task ':copyDocs' into context took 0.0 secs. -Skipping task ':copyDocs' as it is up-to-date (took 0.008 secs). +Skipping task ':copyDocs' as it is up-to-date (took 0.032 secs). :copyDocs UP-TO-DATE -:copyDocs (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.01 secs. -:convertMdFiles (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:copyDocs (Thread[#69,Task worker for ':' Thread 11,5,main]) completed. Took 0.039 secs. +:convertMdFiles (Thread[#61,Task worker for ':' Thread 3,5,main]) started. :convertMdFiles Skipping task ':convertMdFiles' as it has no actions. :convertMdFiles UP-TO-DATE -:convertMdFiles (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:releasesTemplates (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:convertMdFiles (Thread[#61,Task worker for ':' Thread 3,5,main]) completed. Took 0.0 secs. +:releasesTemplates (Thread[#61,Task worker for ':' Thread 3,5,main]) started. :releasesTemplates Skipping task ':releasesTemplates' as it has no actions. :releasesTemplates UP-TO-DATE -:releasesTemplates (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:prepare (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:releasesTemplates (Thread[#61,Task worker for ':' Thread 3,5,main]) completed. Took 0.0 secs. +:prepare (Thread[#61,Task worker for ':' Thread 3,5,main]) started. :prepare Skipping task ':prepare' as it has no actions. -:prepare (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:compileJava (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:prepare (Thread[#61,Task worker for ':' Thread 3,5,main]) completed. Took 0.0 secs. +:compileJava (Thread[#61,Task worker for ':' Thread 3,5,main]) started. :compileJava Putting task artifact state for task ':compileJava' into context took 0.0 secs. file or directory '/build/reproducible-path/jalview-2.11.5.0+dfsg/src/main/java', not found file or directory '/build/reproducible-path/jalview-2.11.5.0+dfsg/src/main/java', not found -Up-to-date check for task ':compileJava' took 1.523 secs. It is not up-to-date because: +Up-to-date check for task ':compileJava' took 5.963 secs. It is not up-to-date because: Input property 'classpath' file /build/reproducible-path/jalview-2.11.5.0+dfsg/classes/com/github/reinert/jjschema/Attributes.class has been added. Input property 'classpath' file /build/reproducible-path/jalview-2.11.5.0+dfsg/classes/com/stevesoft/pat/AmpersandRule.class has been added. Input property 'classpath' file /build/reproducible-path/jalview-2.11.5.0+dfsg/classes/com/stevesoft/pat/Any.class has been added. @@ -3167,13 +3203,13 @@ Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 14 warnings -:compileJava (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 24.444 secs. -:compileTestJava (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:compileJava (Thread[#61,Task worker for ':' Thread 3,5,main]) completed. Took 50.071 secs. +:compileTestJava (Thread[#61,Task worker for ':' Thread 3,5,main]) started. :compileTestJava Putting task artifact state for task ':compileTestJava' into context took 0.0 secs. file or directory '/build/reproducible-path/jalview-2.11.5.0+dfsg/src/test/java', not found file or directory '/build/reproducible-path/jalview-2.11.5.0+dfsg/src/test/java', not found -Up-to-date check for task ':compileTestJava' took 0.064 secs. It is not up-to-date because: +Up-to-date check for task ':compileTestJava' took 0.513 secs. It is not up-to-date because: No history is available. Setting target compatibility to 11 All input files are considered out-of-date for incremental task ':compileTestJava'. @@ -3183,95 +3219,95 @@ Note: Recompile with -Xlint:deprecation for details. Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. -:compileTestJava (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 3.206 secs. -:processTestResources (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:compileTestJava (Thread[#61,Task worker for ':' Thread 3,5,main]) completed. Took 10.887 secs. +:processTestResources (Thread[#61,Task worker for ':' Thread 3,5,main]) started. :processTestResources Putting task artifact state for task ':processTestResources' into context took 0.0 secs. -Up-to-date check for task ':processTestResources' took 0.059 secs. It is not up-to-date because: +Up-to-date check for task ':processTestResources' took 0.086 secs. It is not up-to-date because: No history is available. -:processTestResources (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.225 secs. -:testClasses (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:processTestResources (Thread[#61,Task worker for ':' Thread 3,5,main]) completed. Took 0.5 secs. +:testClasses (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :testClasses Skipping task ':testClasses' as it has no actions. -:testClasses (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:testTask0 (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:testClasses (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 0.0 secs. +:testTask0 (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :testTask0 Putting task artifact state for task ':testTask0' into context took 0.0 secs. -Up-to-date check for task ':testTask0' took 0.045 secs. It is not up-to-date because: +Up-to-date check for task ':testTask0' took 0.066 secs. It is not up-to-date because: No history is available. -Starting process 'Gradle Test Executor 1'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath8371496288778584096txt -Xmx1024m -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 1' +Starting process 'Gradle Test Executor 1'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath11330845583774952998txt -Xmx1024m -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 1' Successfully started process 'Gradle Test Executor 1' Gradle Test Executor 1 started executing tests. Gradle Test Executor 1 finished executing tests. -Finished generating test XML results (0.051 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/test-results/testTask0 +Finished generating test XML results (0.139 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/test-results/testTask0 Generating HTML test report... -Finished generating test html results (0.053 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask0 -:testTask0 (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 4.362 secs. -:testTask1 (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +Finished generating test html results (0.09 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask0 +:testTask0 (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 10.497 secs. +:testTask1 (Thread[#62,Task worker for ':' Thread 4,5,main]) started. :testTask1 Putting task artifact state for task ':testTask1' into context took 0.0 secs. -Up-to-date check for task ':testTask1' took 0.008 secs. It is not up-to-date because: +Up-to-date check for task ':testTask1' took 0.016 secs. It is not up-to-date because: No history is available. -Starting process 'Gradle Test Executor 2'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath16452582187337871625txt -Xmx1024m -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 2' +Starting process 'Gradle Test Executor 2'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath9622871230636764305txt -Xmx1024m -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 2' Successfully started process 'Gradle Test Executor 2' Gradle Test Executor 2 started executing tests. Gradle Test Executor 2 finished executing tests. Finished generating test XML results (0.001 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/test-results/testTask1 Generating HTML test report... -Finished generating test html results (0.003 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask1 +Finished generating test html results (0.013 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask1 There were failing tests. See the report at: file:///build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask1/index.html -:testTask1 (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 1.554 secs. -:testTask2 (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:testTask1 (Thread[#62,Task worker for ':' Thread 4,5,main]) completed. Took 3.868 secs. +:testTask2 (Thread[#69,Task worker for ':' Thread 11,5,main]) started. :testTask2 Putting task artifact state for task ':testTask2' into context took 0.0 secs. -Up-to-date check for task ':testTask2' took 0.009 secs. It is not up-to-date because: +Up-to-date check for task ':testTask2' took 0.022 secs. It is not up-to-date because: No history is available. -Starting process 'Gradle Test Executor 3'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath14789898624654986715txt -Xmx1024m -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 3' +Starting process 'Gradle Test Executor 3'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath12482119864904228478txt -Xmx1024m -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 3' Successfully started process 'Gradle Test Executor 3' Gradle Test Executor 3 started executing tests. Gradle Test Executor 3 finished executing tests. Finished generating test XML results (0.001 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/test-results/testTask2 Generating HTML test report... -Finished generating test html results (0.002 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask2 +Finished generating test html results (0.013 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask2 There were failing tests. See the report at: file:///build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask2/index.html -:testTask2 (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 1.492 secs. -:testTask3 (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:testTask2 (Thread[#69,Task worker for ':' Thread 11,5,main]) completed. Took 4.306 secs. +:testTask3 (Thread[#69,Task worker for ':' Thread 11,5,main]) started. :testTask3 Putting task artifact state for task ':testTask3' into context took 0.0 secs. -Up-to-date check for task ':testTask3' took 0.009 secs. It is not up-to-date because: +Up-to-date check for task ':testTask3' took 0.013 secs. It is not up-to-date because: No history is available. -Starting process 'Gradle Test Executor 4'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath15729971504678301583txt -Xmx1024m -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 4' +Starting process 'Gradle Test Executor 4'. Working directory: /build/reproducible-path/jalview-2.11.5.0+dfsg Command: /usr/lib/jvm/java-21-openjdk-arm64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath1040620162389599426txt -Xmx1024m -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 4' Successfully started process 'Gradle Test Executor 4' Gradle Test Executor 4 started executing tests. Gradle Test Executor 4 finished executing tests. -Finished generating test XML results (0.001 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/test-results/testTask3 +Finished generating test XML results (0.0 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/test-results/testTask3 Generating HTML test report... -Finished generating test html results (0.002 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask3 +Finished generating test html results (0.017 secs) into: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask3 There were failing tests. See the report at: file:///build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask3/index.html -:testTask3 (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 1.496 secs. -:test (Thread[#60,Task worker for ':' Thread 2,5,main]) started. +:testTask3 (Thread[#69,Task worker for ':' Thread 11,5,main]) completed. Took 4.049 secs. +:test (Thread[#69,Task worker for ':' Thread 11,5,main]) started. :test Putting task artifact state for task ':test' into context took 0.0 secs. Skipping task ':test' as it has no source files and no previous output files. :test NO-SOURCE -:test (Thread[#60,Task worker for ':' Thread 2,5,main]) completed. Took 0.002 secs. +:test (Thread[#69,Task worker for ':' Thread 11,5,main]) completed. Took 0.005 secs. -BUILD SUCCESSFUL in 43s +BUILD SUCCESSFUL in 1m 49s 13 actionable tasks: 9 executed, 4 up-to-date ┌─────────────────────────────────────────────────────────────────────────────────────────────────────┐ -│jalview:testTask0 results: SUCCESS (345 tests, 345 successes, 0 failures, 0 skipped) in 2.780 seconds│ +│jalview:testTask0 results: SUCCESS (345 tests, 345 successes, 0 failures, 0 skipped) in 7.223 seconds│ │Report file: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask0/index.html │ ├─────────────────────────────────────────────────────────────────────────────────────────────────────┤ -│jalview:testTask1 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 1.492 seconds │ +│jalview:testTask1 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 3.716 seconds │ │Report file: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask1/index.html │ ├─────────────────────────────────────────────────────────────────────────────────────────────────────┤ -│jalview:testTask2 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 1.427 seconds │ +│jalview:testTask2 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 4.137 seconds │ │Report file: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask2/index.html │ ├─────────────────────────────────────────────────────────────────────────────────────────────────────┤ -│jalview:testTask3 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 1.437 seconds │ +│jalview:testTask3 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 3.868 seconds │ │Report file: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask3/index.html │ ├─────────────────────────────────────────────────────────────────────────────────────────────────────┤ -│OVERALL: results: FAILURE (345 tests, 345 successes, 0 failures, 0 skipped) in 7.136 seconds │ +│OVERALL: results: FAILURE (345 tests, 345 successes, 0 failures, 0 skipped) in 18.944 seconds │ └─────────────────────────────────────────────────────────────────────────────────────────────────────┘ FAILURE: Build failed with an exception. @@ -3372,22 +3408,22 @@ * Get more help at https://help.gradle.org -BUILD FAILED in 43s +BUILD FAILED in 1m 49s 13 actionable tasks: 9 executed, 4 up-to-date ┌─────────────────────────────────────────────────────────────────────────────────────────────────────┐ -│jalview:testTask0 results: SUCCESS (345 tests, 345 successes, 0 failures, 0 skipped) in 2.780 seconds│ +│jalview:testTask0 results: SUCCESS (345 tests, 345 successes, 0 failures, 0 skipped) in 7.223 seconds│ │Report file: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask0/index.html │ ├─────────────────────────────────────────────────────────────────────────────────────────────────────┤ -│jalview:testTask1 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 1.492 seconds │ +│jalview:testTask1 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 3.716 seconds │ │Report file: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask1/index.html │ ├─────────────────────────────────────────────────────────────────────────────────────────────────────┤ -│jalview:testTask2 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 1.427 seconds │ +│jalview:testTask2 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 4.137 seconds │ │Report file: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask2/index.html │ ├─────────────────────────────────────────────────────────────────────────────────────────────────────┤ -│jalview:testTask3 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 1.437 seconds │ +│jalview:testTask3 results: ----- (0 tests, 0 successes, 0 failures, 0 skipped) in 3.868 seconds │ │Report file: /build/reproducible-path/jalview-2.11.5.0+dfsg/build/reports/tests/testTask3/index.html │ ├─────────────────────────────────────────────────────────────────────────────────────────────────────┤ -│OVERALL: results: FAILURE (345 tests, 345 successes, 0 failures, 0 skipped) in 7.136 seconds │ +│OVERALL: results: FAILURE (345 tests, 345 successes, 0 failures, 0 skipped) in 18.944 seconds │ └─────────────────────────────────────────────────────────────────────────────────────────────────────┘ FAILURE: Build failed with an exception. @@ -3484,7 +3520,7 @@ * Get more help at https://help.gradle.org -BUILD FAILED in 43s +BUILD FAILED in 1m 49s dh_auto_test: error: gradle --info --console plain --offline --stacktrace --no-daemon --refresh-dependencies --gradle-user-home .gradle -Duser.home=. -Duser.name=debian -Ddebian.package=jalview -Dfile.encoding=UTF-8 --parallel --max-workers=12 test returned exit code 1 echo "------------------------------" ------------------------------ @@ -3537,12 +3573,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/442539/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/442539/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/2345875 and its subdirectories -I: Current time: Fri Oct 9 22:53:05 -12 2026 -I: pbuilder-time-stamp: 1791629585 +I: removing directory /srv/workspace/pbuilder/442539 and its subdirectories +I: Current time: Sun Sep 7 18:37:51 +14 2025 +I: pbuilder-time-stamp: 1757219871