Diff of the two buildlogs: -- --- b1/build.log 2024-01-06 14:49:05.691166638 +0000 +++ b2/build.log 2024-01-06 14:57:52.425197374 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Feb 7 09:08:56 -12 2025 -I: pbuilder-time-stamp: 1738962536 +I: Current time: Sun Jan 7 04:49:15 +14 2024 +I: pbuilder-time-stamp: 1704552555 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -39,49 +39,81 @@ dpkg-source: info: applying deactivate_flatlaf.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/232605/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3506229/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +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 Jan 6 14:49 /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/3506229/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3506229/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='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16 ' - DISTRIBUTION='bookworm' - HOME='/root' - HOST_ARCH='amd64' + 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]="2" [2]="15" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15 ' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='a583e0cebce543b8a7870cf78e3979f0' - 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='232605' - PS1='# ' - PS2='> ' + INVOCATION_ID=364c041c691348d29c314865d2e3bacc + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-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=3506229 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.zouWf6AF/pbuilderrc_DAg4 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.zouWf6AF/b1 --logfile b1/build.log jalview_2.11.2.5+dfsg-3.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://85.184.249.68:3128' + 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.zouWf6AF/pbuilderrc_Vbsq --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.zouWf6AF/b2 --logfile b2/build.log jalview_2.11.2.5+dfsg-3.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://78.137.99.97:3128 I: uname -a - Linux ionos15-amd64 6.5.0-0.deb12.4-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.5.10-1~bpo12+1 (2023-11-23) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-17-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.69-1 (2023-12-30) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 23 2023 bash @@ -139,15 +171,15 @@ -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 27560 Jul 28 2023 run-parts + -rwxr-xr-x 1 root root 27560 Jul 28 23:46 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 2023 sed - lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash + lrwxrwxrwx 1 root root 9 Jan 6 14:49 sh -> /bin/bash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 23 2023 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 2023 tar - -rwxr-xr-x 1 root root 14520 Jul 28 2023 tempfile + -rwxr-xr-x 1 root root 14520 Jul 28 23:46 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 23 2023 ulockmgr_server @@ -167,7 +199,7 @@ -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew -I: user script /srv/workspace/pbuilder/232605/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/3506229/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -695,7 +727,7 @@ Get: 420 http://deb.debian.org/debian bookworm/main amd64 libmockito-java all 2.23.0-2 [479 kB] Get: 421 http://deb.debian.org/debian bookworm/main amd64 libvamsas-client-java all 0.2+dfsg-2 [584 kB] Get: 422 http://deb.debian.org/debian bookworm/main amd64 varna all 3-93+ds-4 [790 kB] -Fetched 374 MB in 8s (44.7 MB/s) +Fetched 374 MB in 2min 24s (2608 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (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 ... 18148 files and directories currently installed.) @@ -2594,7 +2626,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/jalview-2.11.2.5+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_2.11.2.5+dfsg-3_source.changes +I: user script /srv/workspace/pbuilder/3506229/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for bookworm +I: user script /srv/workspace/pbuilder/3506229/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/jalview-2.11.2.5+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_2.11.2.5+dfsg-3_source.changes dpkg-buildpackage: info: source package jalview dpkg-buildpackage: info: source version 2.11.2.5+dfsg-3 dpkg-buildpackage: info: source distribution unstable @@ -2637,7 +2673,7 @@ dh_auto_build mkdir -p .gradle/init.d cp /usr/share/gradle-debian-helper/init.gradle .gradle/init.d/ - 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=16 jar + 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=15 jar openjdk version "17.0.9" 2023-10-17 OpenJDK Runtime Environment (build 17.0.9+9-Debian-1deb12u1) OpenJDK 64-Bit Server VM (build 17.0.9+9-Debian-1deb12u1, mixed mode, sharing) @@ -2645,18 +2681,18 @@ 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-2.11.2.5+dfsg/.gradle/daemon/4.4.1 Command: /usr/lib/jvm/java-17-openjdk-amd64/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 1.976 secs. -The client will now receive all logging from the daemon (pid: 267404). The daemon log file: /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/daemon/4.4.1/daemon-267404.out.log +An attempt to start the daemon took 3.007 secs. +The client will now receive all logging from the daemon (pid: 3617841). The daemon log file: /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/daemon/4.4.1/daemon-3617841.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 16 worker leases. -Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@20d1440c -Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@20d1440c -Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@144cbc83 +Using 15 worker leases. +Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@6462157d +Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@6462157d +Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@4c9f3525 Starting Build Compiling initialization script '/build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/init.d/init.gradle' using SubsetScriptTransformer. -Creating new cache for metadata-1.1/results, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@4a350ee7 +Creating new cache for metadata-1.1/results, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@3154a142 Compiling initialization script '/build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/init.d/init.gradle' using BuildScriptTransformer. Compiling settings file '/build/reproducible-path/jalview-2.11.2.5+dfsg/settings.gradle' using SubsetScriptTransformer. Compiling settings file '/build/reproducible-path/jalview-2.11.2.5+dfsg/settings.gradle' using BuildScriptTransformer. @@ -2679,61 +2715,61 @@ 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-2.11.2.5+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@61768d66 +Creating new cache for annotation-processors, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@1afdd082 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-2.11.2.5+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@144cbc83 -Creating new cache for taskHistory, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@c1953af -Creating new cache for outputFiles, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@54706e9 +Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@4c9f3525 +Creating new cache for taskHistory, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@3b6745d2 +Creating new cache for outputFiles, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@fe68de7 :copyHelp (Thread[Task worker for ':',5,main]) started. :copyHelp -Putting task artifact state for task ':copyHelp' into context took 0.001 secs. -Up-to-date check for task ':copyHelp' took 0.399 secs. It is not up-to-date because: +Putting task artifact state for task ':copyHelp' into context took 0.014 secs. +Up-to-date check for task ':copyHelp' took 1.02 secs. It is not up-to-date because: No history is available. -:copyHelp (Thread[Task worker for ':',5,main]) completed. Took 1.352 secs. +:copyHelp (Thread[Task worker for ':',5,main]) completed. Took 2.879 secs. :buildIndices (Thread[Task worker for ':',5,main]) started. :buildIndices -Putting task artifact state for task ':buildIndices' into context took 0.007 secs. -Up-to-date check for task ':buildIndices' took 0.137 secs. It is not up-to-date because: +Putting task artifact state for task ':buildIndices' into context took 0.0 secs. +Up-to-date check for task ':buildIndices' took 0.518 secs. It is not up-to-date because: No history is available. Starting process 'command '/usr/lib/jvm/java-17-openjdk-amd64/bin/java''. Working directory: /build/reproducible-path/jalview-2.11.2.5+dfsg/build/resources/help_build/help Command: /usr/lib/jvm/java-17-openjdk-amd64/bin/java -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -cp /build/reproducible-path/jalview-2.11.2.5+dfsg/classes:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/varna.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/vamsas-client.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/slf4j-api.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/org.jfree.svg.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/min-jaba-client.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/miglayout.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/log4j-core.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/log4j-api.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/log4j-1.2.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jswingreader.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jsoup.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/json-simple.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/json.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jsearch-indexer.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/Jmol.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jh.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jetty9-server.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jetty9-util.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jersey1-core.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jersey1-client.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jaxrs-api.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jaxb-api.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/intervalstorej.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/httpmime.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/httpcore.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/httpclient.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/htsjdk.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/groovy-all.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/commons-discovery.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/biojava6-ontology.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/axis-jaxrpc.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/axis.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/apache-mime4j-core.jar com.sun.java.help.search.Indexer html Successfully started process 'command '/usr/lib/jvm/java-17-openjdk-amd64/bin/java'' -:buildIndices (Thread[Task worker for ':',5,main]) completed. Took 2.019 secs. +:buildIndices (Thread[Task worker for ':',5,main]) completed. Took 3.402 secs. :copyResources (Thread[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 0.037 secs. It is not up-to-date because: +Up-to-date check for task ':copyResources' took 0.075 secs. It is not up-to-date because: No history is available. -:copyResources (Thread[Task worker for ':',5,main]) completed. Took 0.108 secs. +:copyResources (Thread[Task worker for ':',5,main]) completed. Took 0.147 secs. :copyChannelResources (Thread[Task worker for ':',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 0.013 secs. It is not up-to-date because: +Up-to-date check for task ':copyChannelResources' took 0.019 secs. It is not up-to-date because: No history is available. -:copyChannelResources (Thread[Task worker for ':',5,main]) completed. Took 0.036 secs. +:copyChannelResources (Thread[Task worker for ':',5,main]) completed. Took 0.056 secs. :createBuildProperties (Thread[Task worker for ':',5,main]) started. :createBuildProperties -Putting task artifact state for task ':createBuildProperties' into context took 0.001 secs. +Putting task artifact state for task ':createBuildProperties' into context took 0.005 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-2.11.2.5+dfsg Command: sh debian/write_build_properties_file.sh Successfully started process 'command 'sh'' -:createBuildProperties (Thread[Task worker for ':',5,main]) completed. Took 0.231 secs. +:createBuildProperties (Thread[Task worker for ':',5,main]) completed. Took 0.366 secs. :buildResources (Thread[Task worker for ':',5,main]) started. :buildResources Skipping task ':buildResources' as it has no actions. -:buildResources (Thread[Task worker for ':',5,main]) completed. Took 0.001 secs. +:buildResources (Thread[Task worker for ':',5,main]) completed. Took 0.0 secs. :copyDocs (Thread[Task worker for ':',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 0.019 secs. It is not up-to-date because: +Up-to-date check for task ':copyDocs' took 0.035 secs. It is not up-to-date because: No history is available. -:copyDocs (Thread[Task worker for ':',5,main]) completed. Took 0.125 secs. +:copyDocs (Thread[Task worker for ':',5,main]) completed. Took 0.155 secs. :convertMdFiles (Thread[Task worker for ':',5,main]) started. :convertMdFiles Putting task artifact state for task ':convertMdFiles' into context took 0.0 secs. -Up-to-date check for task ':convertMdFiles' took 0.005 secs. It is not up-to-date because: +Up-to-date check for task ':convertMdFiles' took 0.004 secs. It is not up-to-date because: No history is available. -:convertMdFiles (Thread[Task worker for ':',5,main]) completed. Took 0.007 secs. +:convertMdFiles (Thread[Task worker for ':',5,main]) completed. Took 0.009 secs. :releasesTemplates (Thread[Task worker for ':',5,main]) started. :releasesTemplates Skipping task ':releasesTemplates' as it has no actions. @@ -2747,7 +2783,7 @@ Putting task artifact state for task ':compileJava' into context took 0.0 secs. file or directory '/build/reproducible-path/jalview-2.11.2.5+dfsg/src/main/java', not found file or directory '/build/reproducible-path/jalview-2.11.2.5+dfsg/src/main/java', not found -Up-to-date check for task ':compileJava' took 2.002 secs. It is not up-to-date because: +Up-to-date check for task ':compileJava' took 1.943 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'. @@ -2800,13 +2836,13 @@ Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 14 warnings -:compileJava (Thread[Task worker for ':',5,main]) completed. Took 23.155 secs. +:compileJava (Thread[Task worker for ':',5,main]) completed. Took 25.888 secs. :processResources (Thread[Task worker for ':',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 0.068 secs. It is not up-to-date because: +Up-to-date check for task ':processResources' took 0.09 secs. It is not up-to-date because: No history is available. -:processResources (Thread[Task worker for ':',5,main]) completed. Took 0.221 secs. +:processResources (Thread[Task worker for ':',5,main]) completed. Took 0.705 secs. :classes (Thread[Task worker for ':',5,main]) started. :classes Skipping task ':classes' as it has no actions. @@ -2814,18 +2850,18 @@ :debianMavenPom (Thread[Task worker for ':',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 0.004 secs. It is not up-to-date because: No history is available. Generating pom file /build/reproducible-path/jalview-2.11.2.5+dfsg/build/debian/jalview.pom -:debianMavenPom (Thread[Task worker for ':',5,main]) completed. Took 0.086 secs. +:debianMavenPom (Thread[Task worker for ':',5,main]) completed. Took 0.122 secs. :jar (Thread[Task worker for ':',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 0.087 secs. It is not up-to-date because: +Up-to-date check for task ':jar' took 0.107 secs. It is not up-to-date because: No history is available. -:jar (Thread[Task worker for ':',5,main]) completed. Took 1.091 secs. +:jar (Thread[Task worker for ':',5,main]) completed. Took 1.093 secs. -BUILD SUCCESSFUL in 43s +BUILD SUCCESSFUL in 53s 11 actionable tasks: 11 executed debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/jalview-2.11.2.5+dfsg' @@ -2836,7 +2872,7 @@ dh_auto_test mkdir -p .gradle/init.d cp /usr/share/gradle-debian-helper/init.gradle .gradle/init.d/ - 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=16 test + 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=15 test openjdk version "17.0.9" 2023-10-17 OpenJDK Runtime Environment (build 17.0.9+9-Debian-1deb12u1) OpenJDK 64-Bit Server VM (build 17.0.9+9-Debian-1deb12u1, mixed mode, sharing) @@ -2844,17 +2880,17 @@ 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-2.11.2.5+dfsg/.gradle/daemon/4.4.1 Command: /usr/lib/jvm/java-17-openjdk-amd64/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 1.066 secs. -The client will now receive all logging from the daemon (pid: 278101). The daemon log file: /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/daemon/4.4.1/daemon-278101.out.log -Daemon will be stopped at the end of the build stopping after processing +An attempt to start the daemon took 1.519 secs. +The client will now receive all logging from the daemon (pid: 3666696). The daemon log file: /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/daemon/4.4.1/daemon-3666696.out.log Closing daemon's stdin at end of input. The daemon will no longer process any standard input. -Using 16 worker leases. -Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@4bf442f7 -Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@4bf442f7 -Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@24df452e +Daemon will be stopped at the end of the build stopping after processing +Using 15 worker leases. +Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@40a72656 +Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@40a72656 +Creating new cache for fileHashes, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@52e34964 Starting Build -Creating new cache for metadata-1.1/results, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@383750e5 +Creating new cache for metadata-1.1/results, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@75cafe4f Settings evaluated using settings file '/build/reproducible-path/jalview-2.11.2.5+dfsg/settings.gradle'. Projects loaded. Root project using build file '/build/reproducible-path/jalview-2.11.2.5+dfsg/build.gradle'. Included projects: [root project 'jalview'] @@ -2870,80 +2906,80 @@ 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-2.11.2.5+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@7f7da0d2 +Creating new cache for annotation-processors, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@6a5139ed 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 ':test'] -Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@24df452e -Creating new cache for taskHistory, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@525a59c1 -Creating new cache for outputFiles, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@27bac50 -:copyHelp (Thread[Task worker for ':' Thread 2,5,main]) started. +Creating new cache for resourceHashesCache, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@52e34964 +Creating new cache for taskHistory, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@6191c366 +Creating new cache for outputFiles, path /build/reproducible-path/jalview-2.11.2.5+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@25de7ef6 +:copyHelp (Thread[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 0.22 secs). +Putting task artifact state for task ':copyHelp' into context took 0.006 secs. +Skipping task ':copyHelp' as it is up-to-date (took 0.254 secs). :copyHelp UP-TO-DATE -:copyHelp (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.238 secs. -:buildIndices (Thread[Task worker for ':' Thread 2,5,main]) started. +:copyHelp (Thread[Task worker for ':',5,main]) completed. Took 0.316 secs. +:buildIndices (Thread[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 0.428 secs. It is not up-to-date because: +Up-to-date check for task ':buildIndices' took 0.429 secs. It is not up-to-date because: Input property 'classpath' file /build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/Jmol.jar has been removed. Input property 'classpath' file /build/reproducible-path/jalview-2.11.2.5+dfsg/classes/com/github/reinert/jjschema/Attributes.class has been added. Input property 'classpath' file /build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/apache-mime4j-core.jar has been removed. Starting process 'command '/usr/lib/jvm/java-17-openjdk-amd64/bin/java''. Working directory: /build/reproducible-path/jalview-2.11.2.5+dfsg/build/resources/help_build/help Command: /usr/lib/jvm/java-17-openjdk-amd64/bin/java -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -cp /build/reproducible-path/jalview-2.11.2.5+dfsg/classes:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/testng.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/mockito-core.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/junit4.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jcommander.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jaxb-impl.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/varna.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/vamsas-client.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/slf4j-api.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/org.jfree.svg.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/min-jaba-client.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/miglayout.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/log4j-core.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/log4j-api.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/log4j-1.2.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jswingreader.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jsoup.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/json-simple.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/json.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jsearch-indexer.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/Jmol.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jh.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jetty9-server.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jetty9-util.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jersey1-core.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jersey1-client.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jaxrs-api.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/jaxb-api.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/intervalstorej.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/httpmime.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/httpcore.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/httpclient.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/htsjdk.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/groovy-all.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/commons-discovery.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/biojava6-ontology.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/axis-jaxrpc.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/axis.jar:/build/reproducible-path/jalview-2.11.2.5+dfsg/cpJars/apache-mime4j-core.jar com.sun.java.help.search.Indexer html Successfully started process 'command '/usr/lib/jvm/java-17-openjdk-amd64/bin/java'' -:buildIndices (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 1.59 secs. -:copyResources (Thread[Task worker for ':' Thread 2,5,main]) started. +:buildIndices (Thread[Task worker for ':',5,main]) completed. Took 1.9 secs. +:copyResources (Thread[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 0.025 secs). +Skipping task ':copyResources' as it is up-to-date (took 0.05 secs). :copyResources UP-TO-DATE -:copyResources (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.028 secs. -:copyChannelResources (Thread[Task worker for ':' Thread 2,5,main]) started. +:copyResources (Thread[Task worker for ':',5,main]) completed. Took 0.055 secs. +:copyChannelResources (Thread[Task worker for ':',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 0.003 secs). +Skipping task ':copyChannelResources' as it is up-to-date (took 0.015 secs). :copyChannelResources UP-TO-DATE -:copyChannelResources (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.006 secs. -:createBuildProperties (Thread[Task worker for ':' Thread 2,5,main]) started. +:copyChannelResources (Thread[Task worker for ':',5,main]) completed. Took 0.018 secs. +:createBuildProperties (Thread[Task worker for ':',5,main]) started. :createBuildProperties 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-2.11.2.5+dfsg Command: sh debian/write_build_properties_file.sh Successfully started process 'command 'sh'' -:createBuildProperties (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.214 secs. -:buildResources (Thread[Task worker for ':' Thread 2,5,main]) started. +:createBuildProperties (Thread[Task worker for ':',5,main]) completed. Took 0.312 secs. +:buildResources (Thread[Task worker for ':',5,main]) started. :buildResources Skipping task ':buildResources' as it has no actions. -:buildResources (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:copyDocs (Thread[Task worker for ':' Thread 2,5,main]) started. +:buildResources (Thread[Task worker for ':',5,main]) completed. Took 0.0 secs. +:copyDocs (Thread[Task worker for ':',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 0.009 secs). +Skipping task ':copyDocs' as it is up-to-date (took 0.016 secs). :copyDocs UP-TO-DATE -:copyDocs (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.011 secs. -:convertMdFiles (Thread[Task worker for ':' Thread 2,5,main]) started. +:copyDocs (Thread[Task worker for ':',5,main]) completed. Took 0.02 secs. +:convertMdFiles (Thread[Task worker for ':',5,main]) started. :convertMdFiles Putting task artifact state for task ':convertMdFiles' into context took 0.0 secs. -Up-to-date check for task ':convertMdFiles' took 0.006 secs. It is not up-to-date because: +Up-to-date check for task ':convertMdFiles' took 0.007 secs. It is not up-to-date because: Output property '$1$2' has been added for task ':convertMdFiles' Output property '$1$1' has been added for task ':convertMdFiles' Output property '$1$4' has been added for task ':convertMdFiles' -:convertMdFiles (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.009 secs. -:releasesTemplates (Thread[Task worker for ':' Thread 2,5,main]) started. +:convertMdFiles (Thread[Task worker for ':',5,main]) completed. Took 0.011 secs. +:releasesTemplates (Thread[Task worker for ':',5,main]) started. :releasesTemplates Skipping task ':releasesTemplates' as it has no actions. :releasesTemplates UP-TO-DATE -:releasesTemplates (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:prepare (Thread[Task worker for ':' Thread 2,5,main]) started. +:releasesTemplates (Thread[Task worker for ':',5,main]) completed. Took 0.0 secs. +:prepare (Thread[Task worker for ':',5,main]) started. :prepare Skipping task ':prepare' as it has no actions. -:prepare (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:compileJava (Thread[Task worker for ':' Thread 2,5,main]) started. +:prepare (Thread[Task worker for ':',5,main]) completed. Took 0.001 secs. +:compileJava (Thread[Task worker for ':',5,main]) started. :compileJava Putting task artifact state for task ':compileJava' into context took 0.0 secs. file or directory '/build/reproducible-path/jalview-2.11.2.5+dfsg/src/main/java', not found file or directory '/build/reproducible-path/jalview-2.11.2.5+dfsg/src/main/java', not found -Up-to-date check for task ':compileJava' took 1.458 secs. It is not up-to-date because: +Up-to-date check for task ':compileJava' took 2.524 secs. It is not up-to-date because: Input property 'classpath' file /build/reproducible-path/jalview-2.11.2.5+dfsg/classes/com/github/reinert/jjschema/Attributes.class has been added. Input property 'classpath' file /build/reproducible-path/jalview-2.11.2.5+dfsg/classes/com/stevesoft/pat/AmpersandRule.class has been added. Input property 'classpath' file /build/reproducible-path/jalview-2.11.2.5+dfsg/classes/com/stevesoft/pat/Any.class has been added. @@ -2997,13 +3033,13 @@ Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 14 warnings -:compileJava (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 19.054 secs. -:compileTestJava (Thread[Task worker for ':' Thread 2,5,main]) started. +:compileJava (Thread[Task worker for ':',5,main]) completed. Took 27.39 secs. +:compileTestJava (Thread[Task worker for ':',5,main]) started. :compileTestJava Putting task artifact state for task ':compileTestJava' into context took 0.0 secs. file or directory '/build/reproducible-path/jalview-2.11.2.5+dfsg/src/test/java', not found file or directory '/build/reproducible-path/jalview-2.11.2.5+dfsg/src/test/java', not found -Up-to-date check for task ':compileTestJava' took 0.101 secs. It is not up-to-date because: +Up-to-date check for task ':compileTestJava' took 0.154 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'. @@ -3013,23 +3049,23 @@ 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[Task worker for ':' Thread 2,5,main]) completed. Took 5.031 secs. -:processTestResources (Thread[Task worker for ':' Thread 2,5,main]) started. +:compileTestJava (Thread[Task worker for ':',5,main]) completed. Took 6.45 secs. +:processTestResources (Thread[Task worker for ':',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 0.046 secs. It is not up-to-date because: +Up-to-date check for task ':processTestResources' took 0.067 secs. It is not up-to-date because: No history is available. -:processTestResources (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.208 secs. -:testClasses (Thread[Task worker for ':' Thread 2,5,main]) started. +:processTestResources (Thread[Task worker for ':',5,main]) completed. Took 0.326 secs. +:testClasses (Thread[Task worker for ':',5,main]) started. :testClasses Skipping task ':testClasses' as it has no actions. -:testClasses (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. -:test (Thread[Task worker for ':' Thread 2,5,main]) started. +:testClasses (Thread[Task worker for ':',5,main]) completed. Took 0.0 secs. +:test (Thread[Task worker for ':',5,main]) started. :test Putting task artifact state for task ':test' into context took 0.0 secs. -Up-to-date check for task ':test' took 0.05 secs. It is not up-to-date because: +Up-to-date check for task ':test' took 0.078 secs. It is not up-to-date because: No history is available. -Starting process 'Gradle Test Executor 1'. Working directory: /build/reproducible-path/jalview-2.11.2.5+dfsg Command: /usr/lib/jvm/java-17-openjdk-amd64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath69372576921518791txt -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-2.11.2.5+dfsg Command: /usr/lib/jvm/java-17-openjdk-amd64/bin/java -Dorg.gradle.native=false @/tmp/gradle-worker-classpath994738222912452913txt -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. @@ -8129,20 +8165,20 @@ INFO: I18N missing: en label.rubbish Gradle suite > Gradle test > jalview.bin.MemorySettingTest.testGetMemorySetting STANDARD_OUT - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). MemorySetting Property 'jvmmemmax' (1B) too small, using minimum (536870912). MemorySetting property 'jvmmempc' (0.000000001) badly formatted - MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (66870857728). + MemorySetting Property 'jvmmempc' (100) too large. Leaving free space for OS and reducing to (67142574080). Gradle suite > Gradle test > jalview.ext.ensembl.EnsemblRestClientTest.testIsEnsemblAvailable STANDARD_ERROR Error connecting to https://rest.ensembl.org/info/ping?content-type=application/json: rest.ensembl.org @@ -8151,10 +8187,10 @@ Ensembl is DOWN or unreachable ******************* BAD! Gradle suite > Gradle test > jalview.math.MatrixTest.testFindMinMax_timing STANDARD_OUT - findMinMax for 1000 x 1000 took 13ms + findMinMax for 1000 x 1000 took 12ms Gradle suite > Gradle test > jalview.math.MatrixTest.testPreMultiply_timing STANDARD_OUT - 50x100 multiplications of double took 19ms + 50x100 multiplications of double took 18ms Gradle suite > Gradle test > jalview.datamodel.VisibleRowsIteratorTest STANDARD_OUT >SEQ1/1-20 @@ -8328,17 +8364,17 @@ Gradle suite > Gradle test > jalview.io.FileFormatsTest.testRegisterFileFormat STANDARD_ERROR Overwriting file format: mmCIF -Gradle Test Executor 1 finished executing tests. WARNING: A terminally deprecated method in java.lang.System has been called WARNING: System::setSecurityManager has been called by org.gradle.api.internal.tasks.testing.worker.TestWorker (file:/usr/share/gradle/lib/plugins/gradle-testing-base-4.4.1.jar) WARNING: Please consider reporting this to the maintainers of org.gradle.api.internal.tasks.testing.worker.TestWorker WARNING: System::setSecurityManager will be removed in a future release -Finished generating test XML results (0.097 secs) into: /build/reproducible-path/jalview-2.11.2.5+dfsg/build/test-results/test +Gradle Test Executor 1 finished executing tests. +Finished generating test XML results (0.091 secs) into: /build/reproducible-path/jalview-2.11.2.5+dfsg/build/test-results/test Generating HTML test report... -Finished generating test html results (0.124 secs) into: /build/reproducible-path/jalview-2.11.2.5+dfsg/build/reports/tests/test -:test (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 6.758 secs. +Finished generating test html results (0.176 secs) into: /build/reproducible-path/jalview-2.11.2.5+dfsg/build/reports/tests/test +:test (Thread[Task worker for ':',5,main]) completed. Took 8.338 secs. -BUILD SUCCESSFUL in 40s +BUILD SUCCESSFUL in 52s 11 actionable tasks: 7 executed, 4 up-to-date make[1]: Leaving directory '/build/reproducible-path/jalview-2.11.2.5+dfsg' create-stamp debian/debhelper-build-stamp @@ -8386,12 +8422,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3506229/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3506229/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/232605 and its subdirectories -I: Current time: Fri Feb 7 09:12:06 -12 2025 -I: pbuilder-time-stamp: 1738962726 +I: removing directory /srv/workspace/pbuilder/3506229 and its subdirectories +I: Current time: Sun Jan 7 04:57:51 +14 2024 +I: pbuilder-time-stamp: 1704553071