Diff of the two buildlogs: -- --- b1/build.log 2025-03-05 21:05:17.581816976 +0000 +++ b2/build.log 2025-03-05 21:10:03.044899174 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Apr 7 15:09:51 -12 2026 -I: pbuilder-time-stamp: 1775617791 +I: Current time: Thu Mar 6 11:05:20 +14 2025 +I: pbuilder-time-stamp: 1741208720 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -27,51 +27,83 @@ dpkg-source: info: applying openjdk-21.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1409059/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3594073/tmp/hooks/D01_modify_environment starting +debug: Running on infom01-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 Mar 5 21:05 /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/3594073/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3594073/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' + 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]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(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=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='223de9bc53114d8bbab445f00baae4a9' - 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='1409059' - PS1='# ' - PS2='> ' + INVOCATION_ID=3244eb87a2d54333b852bcc46d982ba3 + 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=3594073 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.AFbcDati/pbuilderrc_E8ue --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.AFbcDati/b1 --logfile b1/build.log gkl_0.8.11+dfsg-2.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + 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.AFbcDati/pbuilderrc_zFkE --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.AFbcDati/b2 --logfile b2/build.log gkl_0.8.11+dfsg-2.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom02-amd64 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1409059/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3594073/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -547,7 +579,7 @@ Get: 412 http://deb.debian.org/debian trixie/main amd64 libhtsjdk-java all 4.1.3+dfsg-2 [1841 kB] Get: 413 http://deb.debian.org/debian trixie/main amd64 yasm amd64 1.3.0-5 [412 kB] Get: 414 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] -Fetched 366 MB in 9s (41.7 MB/s) +Fetched 366 MB in 8s (47.2 MB/s) Preconfiguring packages ... Selecting previously unselected package libsystemd-shared: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 ... 19800 files and directories currently installed.) @@ -1908,8 +1940,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Apr 8 03:14:09 UTC 2026. -Universal Time is now: Wed Apr 8 03:14:09 UTC 2026. +Local time is now: Wed Mar 5 21:07:26 UTC 2025. +Universal Time is now: Wed Mar 5 21:07:26 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... @@ -2462,7 +2494,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/gkl-0.8.11+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 > ../gkl_0.8.11+dfsg-2_source.changes +I: user script /srv/workspace/pbuilder/3594073/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3594073/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/gkl-0.8.11+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 > ../gkl_0.8.11+dfsg-2_source.changes dpkg-buildpackage: info: source package gkl dpkg-buildpackage: info: source version 0.8.11+dfsg-2 dpkg-buildpackage: info: source distribution unstable @@ -2484,8 +2520,8 @@ dh_autoreconf_clean -O--buildsystem=gradle jh_clean -O--buildsystem=gradle rm -fr debian/_jh_manifest* debian/_jh_build* -Duplicate specification "unlink|u" for option "u" Duplicate specification "u=s" for option "u" +Duplicate specification "unlink|u" for option "u" rm -fr debian/.eclipse-build rm -f debian/orbitdeps.debhelper dh_clean -O--buildsystem=gradle @@ -2514,7 +2550,7 @@ dh_auto_configure make[1]: Leaving directory '/build/reproducible-path/gkl-0.8.11+dfsg' jh_linkjars -O--buildsystem=gradle -Duplicate specification "u=s" for option "u" +Duplicate specification "unlink|u" for option "u" Duplicate specification "u=s" for option "u" dh_auto_build -O--buildsystem=gradle mkdir -p .gradle/init.d @@ -2527,18 +2563,18 @@ 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/gkl-0.8.11+dfsg/.gradle/daemon/4.4.1 Command: /usr/lib/jvm/java-21-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=US -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 1.865 secs. -The client will now receive all logging from the daemon (pid: 1434904). The daemon log file: /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/daemon/4.4.1/daemon-1434904.out.log +An attempt to start the daemon took 0.618 secs. +The client will now receive all logging from the daemon (pid: 3604727). The daemon log file: /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/daemon/4.4.1/daemon-3604727.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/gkl-0.8.11+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@6cb02e07 -Creating new cache for resourceHashesCache, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@6cb02e07 -Creating new cache for fileHashes, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@7e8f266f +Creating new cache for fileHashes, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@ea9e486 +Creating new cache for resourceHashesCache, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@ea9e486 +Creating new cache for fileHashes, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@58cd527f Starting Build Compiling initialization script '/build/reproducible-path/gkl-0.8.11+dfsg/.gradle/init.d/init.gradle' using SubsetScriptTransformer. -Creating new cache for metadata-1.1/results, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@ac9c177 +Creating new cache for metadata-1.1/results, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@6cf02cc7 Compiling initialization script '/build/reproducible-path/gkl-0.8.11+dfsg/.gradle/init.d/init.gradle' using BuildScriptTransformer. Settings evaluated using settings file '/build/reproducible-path/gkl-0.8.11+dfsg/settings.gradle'. Settings file not found (/build/reproducible-path/gkl-0.8.11+dfsg/settings.gradle) @@ -2557,15 +2593,15 @@ 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/gkl-0.8.11+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@57704fe8 +Creating new cache for annotation-processors, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@7aa021a8 Tasks to be executed: [task ':compileJava', task ':cmakeConfig', task ':cmakeBuild', task ':copyNativeLib', task ':processResources', task ':classes', task ':buildOnMac', task ':debianMavenPom', task ':jar'] -Creating new cache for resourceHashesCache, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@7e8f266f -Creating new cache for taskHistory, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@44747a5a -Creating new cache for outputFiles, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@26c9b049 -:compileJava (Thread[#56,Task worker for ':',5,main]) started. +Creating new cache for resourceHashesCache, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@58cd527f +Creating new cache for taskHistory, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@2430812 +Creating new cache for outputFiles, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@52d3e925 +:compileJava (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :compileJava -Putting task artifact state for task ':compileJava' into context took 0.018 secs. -Creating new cache for metadata-2.36/module-metadata, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/modules-2/metadata-2.36/module-metadata.bin, access org.gradle.cache.internal.DefaultCacheAccess@21ea36a6 +Putting task artifact state for task ':compileJava' into context took 0.003 secs. +Creating new cache for metadata-2.36/module-metadata, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/modules-2/metadata-2.36/module-metadata.bin, access org.gradle.cache.internal.DefaultCacheAccess@15587e8b Loading the Maven rules... Replacing commons-io:commons-io:jar:2.7 -> commons-io:commons-io:jar:debian Passing through org.apache.commons:commons-parent:jar:debian @@ -2642,20 +2678,20 @@ at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) at org.gradle.internal.concurrent.ThreadFactoryImpl$ManagedThreadRunnable.run(ThreadFactoryImpl.java:55) at java.base/java.lang.Thread.run(Thread.java:1583) -Up-to-date check for task ':compileJava' took 5.016 secs. It is not up-to-date because: +Up-to-date check for task ':compileJava' took 0.955 secs. It is not up-to-date because: No history is available. All input files are considered out-of-date for incremental task ':compileJava'. Compiling with JDK Java compiler API. -:compileJava (Thread[#56,Task worker for ':',5,main]) completed. Took 9.499 secs. -:cmakeConfig (Thread[#56,Task worker for ':',5,main]) started. +:compileJava (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 1.61 secs. +:cmakeConfig (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :cmakeConfig Putting task artifact state for task ':cmakeConfig' into context took 0.0 secs. -Up-to-date check for task ':cmakeConfig' took 0.015 secs. It is not up-to-date because: +Up-to-date check for task ':cmakeConfig' took 0.001 secs. It is not up-to-date because: No history is available. Starting process 'command 'cmake''. Working directory: /build/reproducible-path/gkl-0.8.11+dfsg/build/native Command: cmake -Wno-dev /build/reproducible-path/gkl-0.8.11+dfsg Successfully started process 'command 'cmake'' -:cmakeConfig (Thread[#56,Task worker for ':',5,main]) completed. Took 5.945 secs. -:cmakeBuild (Thread[#56,Task worker for ':',5,main]) started. +:cmakeConfig (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 1.413 secs. +:cmakeBuild (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :cmakeBuild Putting task artifact state for task ':cmakeBuild' into context took 0.0 secs. Up-to-date check for task ':cmakeBuild' took 0.0 secs. It is not up-to-date because: @@ -2696,44 +2732,44 @@ configure.ac:73: You should run autoupdate. ./lib/autoconf/general.m4:2845: AC_TRY_COMPILE is expanded from... configure.ac:73: the top level -:cmakeBuild (Thread[#56,Task worker for ':',5,main]) completed. Took 4 mins 55.001 secs. -:copyNativeLib (Thread[#56,Task worker for ':',5,main]) started. +:cmakeBuild (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 49.958 secs. +:copyNativeLib (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :copyNativeLib Putting task artifact state for task ':copyNativeLib' into context took 0.0 secs. -Up-to-date check for task ':copyNativeLib' took 0.091 secs. It is not up-to-date because: +Up-to-date check for task ':copyNativeLib' took 0.007 secs. It is not up-to-date because: No history is available. -:copyNativeLib (Thread[#56,Task worker for ':',5,main]) completed. Took 0.361 secs. -:processResources (Thread[#56,Task worker for ':',5,main]) started. +:copyNativeLib (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 0.027 secs. +:processResources (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :processResources Putting task artifact state for task ':processResources' into context took 0.0 secs. file or directory '/build/reproducible-path/gkl-0.8.11+dfsg/src/main/resources', not found Skipping task ':processResources' as it has no source files and no previous output files. :processResources NO-SOURCE -:processResources (Thread[#56,Task worker for ':',5,main]) completed. Took 0.019 secs. -:classes (Thread[#56,Task worker for ':',5,main]) started. +:processResources (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 0.001 secs. +:classes (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :classes Skipping task ':classes' as it has no actions. -:classes (Thread[#56,Task worker for ':',5,main]) completed. Took 0.0 secs. -:buildOnMac (Thread[#56,Task worker for ':',5,main]) started. +:classes (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 0.0 secs. +:buildOnMac (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :buildOnMac Skipping task ':buildOnMac' as task onlyIf is false. :buildOnMac SKIPPED -:buildOnMac (Thread[#56,Task worker for ':',5,main]) completed. Took 0.067 secs. -:debianMavenPom (Thread[#62,Task worker for ':' Thread 7,5,main]) started. +:buildOnMac (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 0.003 secs. +:debianMavenPom (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :debianMavenPom Putting task artifact state for task ':debianMavenPom' into context took 0.0 secs. -Up-to-date check for task ':debianMavenPom' took 0.005 secs. It is not up-to-date because: +Up-to-date check for task ':debianMavenPom' took 0.0 secs. It is not up-to-date because: No history is available. Generating pom file /build/reproducible-path/gkl-0.8.11+dfsg/build/debian/gkl.pom -:debianMavenPom (Thread[#62,Task worker for ':' Thread 7,5,main]) completed. Took 0.513 secs. -:jar (Thread[#62,Task worker for ':' Thread 7,5,main]) started. +:debianMavenPom (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 0.035 secs. +:jar (Thread[#58,Task worker for ':' Thread 3,5,main]) started. :jar Putting task artifact state for task ':jar' into context took 0.0 secs. -Up-to-date check for task ':jar' took 0.024 secs. It is not up-to-date because: +Up-to-date check for task ':jar' took 0.002 secs. It is not up-to-date because: No history is available. -:jar (Thread[#62,Task worker for ':' Thread 7,5,main]) completed. Took 0.123 secs. +:jar (Thread[#58,Task worker for ':' Thread 3,5,main]) completed. Took 0.018 secs. -BUILD SUCCESSFUL in 5m 32s +BUILD SUCCESSFUL in 56s 6 actionable tasks: 6 executed jh_build -O--buildsystem=gradle rm -f debian/libgkl-java.debhelper.log debian/libgkl-jni.debhelper.log @@ -2752,17 +2788,17 @@ 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/gkl-0.8.11+dfsg/.gradle/daemon/4.4.1 Command: /usr/lib/jvm/java-21-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=US -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 2.934 secs. -The client will now receive all logging from the daemon (pid: 1461236). The daemon log file: /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/daemon/4.4.1/daemon-1461236.out.log +An attempt to start the daemon took 0.516 secs. +The client will now receive all logging from the daemon (pid: 3618663). The daemon log file: /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/daemon/4.4.1/daemon-3618663.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/gkl-0.8.11+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@21f76a01 -Creating new cache for resourceHashesCache, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@21f76a01 -Creating new cache for fileHashes, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@6efd0a73 +Creating new cache for fileHashes, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@19643b47 +Creating new cache for resourceHashesCache, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@19643b47 +Creating new cache for fileHashes, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@268d07bb Starting Build -Creating new cache for metadata-1.1/results, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@720cd15 +Creating new cache for metadata-1.1/results, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@1ad3be2e Settings evaluated using settings file '/build/reproducible-path/gkl-0.8.11+dfsg/settings.gradle'. Settings file not found (/build/reproducible-path/gkl-0.8.11+dfsg/settings.gradle) Root project name not defined in settings.gradle, defaulting to 'gkl' instead of the name of the root directory 'gkl-0.8.11+dfsg' @@ -2778,15 +2814,15 @@ 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/gkl-0.8.11+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@36af15ad +Creating new cache for annotation-processors, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@6e416fb8 Tasks to be executed: [task ':compileJava', task ':cmakeConfig', task ':cmakeBuild', task ':copyNativeLib', task ':processResources', task ':classes', task ':buildOnMac', task ':compileTestJava', task ':processTestResources', task ':testClasses', task ':test'] -Creating new cache for resourceHashesCache, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@6efd0a73 -Creating new cache for taskHistory, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@70940123 -Creating new cache for outputFiles, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@1b236ea -:compileJava (Thread[#56,Task worker for ':',5,main]) started. +Creating new cache for resourceHashesCache, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@268d07bb +Creating new cache for taskHistory, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@6c13753 +Creating new cache for outputFiles, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@78577498 +:compileJava (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :compileJava -Putting task artifact state for task ':compileJava' into context took 0.039 secs. -Creating new cache for metadata-2.36/module-metadata, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/modules-2/metadata-2.36/module-metadata.bin, access org.gradle.cache.internal.DefaultCacheAccess@7a3565fb +Putting task artifact state for task ':compileJava' into context took 0.002 secs. +Creating new cache for metadata-2.36/module-metadata, path /build/reproducible-path/gkl-0.8.11+dfsg/.gradle/caches/modules-2/metadata-2.36/module-metadata.bin, access org.gradle.cache.internal.DefaultCacheAccess@73529a54 Loading the Maven rules... Replacing commons-io:commons-io:jar:2.7 -> commons-io:commons-io:jar:debian Passing through org.apache.commons:commons-parent:jar:debian @@ -2815,65 +2851,65 @@ Passing through xerces:xercesImpl:jar:debian Passing through jaxen:jaxen:jar:debian Passing through xml-apis:xml-apis-1.4:jar:debian -Skipping task ':compileJava' as it is up-to-date (took 2.727 secs). +Skipping task ':compileJava' as it is up-to-date (took 0.22 secs). :compileJava UP-TO-DATE -:compileJava (Thread[#56,Task worker for ':',5,main]) completed. Took 2.84 secs. -:cmakeConfig (Thread[#65,Task worker for ':' Thread 10,5,main]) started. +:compileJava (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.231 secs. +:cmakeConfig (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :cmakeConfig Putting task artifact state for task ':cmakeConfig' into context took 0.0 secs. -Up-to-date check for task ':cmakeConfig' took 0.041 secs. It is not up-to-date because: +Up-to-date check for task ':cmakeConfig' took 0.003 secs. It is not up-to-date because: Input property '$1' file /build/reproducible-path/gkl-0.8.11+dfsg/build/native/src/main/native/compression/otc_zlibExternal-prefix/src/otc_zlibExternal/CMakeLists.txt has been added. Starting process 'command 'cmake''. Working directory: /build/reproducible-path/gkl-0.8.11+dfsg/build/native Command: cmake -Wno-dev /build/reproducible-path/gkl-0.8.11+dfsg Successfully started process 'command 'cmake'' -:cmakeConfig (Thread[#65,Task worker for ':' Thread 10,5,main]) completed. Took 1.244 secs. -:cmakeBuild (Thread[#35,Daemon worker,5,main]) started. +:cmakeConfig (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.211 secs. +:cmakeBuild (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :cmakeBuild Putting task artifact state for task ':cmakeBuild' into context took 0.0 secs. Up-to-date check for task ':cmakeBuild' took 0.0 secs. It is not up-to-date because: Task has not declared any outputs. Starting process 'command 'true''. Working directory: /build/reproducible-path/gkl-0.8.11+dfsg/build/native Command: true Successfully started process 'command 'true'' -:cmakeBuild (Thread[#35,Daemon worker,5,main]) completed. Took 0.042 secs. -:copyNativeLib (Thread[#35,Daemon worker,5,main]) started. +:cmakeBuild (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.004 secs. +:copyNativeLib (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :copyNativeLib Putting task artifact state for task ':copyNativeLib' into context took 0.0 secs. -Skipping task ':copyNativeLib' as it is up-to-date (took 0.007 secs). +Skipping task ':copyNativeLib' as it is up-to-date (took 0.002 secs). :copyNativeLib UP-TO-DATE -:copyNativeLib (Thread[#35,Daemon worker,5,main]) completed. Took 0.016 secs. -:processResources (Thread[#56,Task worker for ':',5,main]) started. +:copyNativeLib (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.004 secs. +:processResources (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :processResources Putting task artifact state for task ':processResources' into context took 0.0 secs. file or directory '/build/reproducible-path/gkl-0.8.11+dfsg/src/main/resources', not found Skipping task ':processResources' as it has no source files and no previous output files. :processResources NO-SOURCE -:processResources (Thread[#56,Task worker for ':',5,main]) completed. Took 0.049 secs. -:classes (Thread[#56,Task worker for ':',5,main]) started. +:processResources (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.001 secs. +:classes (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :classes Skipping task ':classes' as it has no actions. :classes UP-TO-DATE -:classes (Thread[#56,Task worker for ':',5,main]) completed. Took 0.0 secs. -:buildOnMac (Thread[#56,Task worker for ':',5,main]) started. +:classes (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. +:buildOnMac (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :buildOnMac Skipping task ':buildOnMac' as task onlyIf is false. :buildOnMac SKIPPED -:buildOnMac (Thread[#56,Task worker for ':',5,main]) completed. Took 0.032 secs. +:buildOnMac (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.003 secs. :compileTestJava (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :compileTestJava Putting task artifact state for task ':compileTestJava' into context took 0.0 secs. Replacing org.testng:testng:jar:7.5.1 -> org.testng:testng:jar:debian Passing through org.beanshell:bsh:jar:debian Passing through com.beust:jcommander:jar:debian -Up-to-date check for task ':compileTestJava' took 0.755 secs. It is not up-to-date because: +Up-to-date check for task ':compileTestJava' took 0.135 secs. It is not up-to-date because: No history is available. All input files are considered out-of-date for incremental task ':compileTestJava'. Compiling with JDK Java compiler API. -:compileTestJava (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 4.492 secs. +:compileTestJava (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.816 secs. :processTestResources (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :processTestResources Putting task artifact state for task ':processTestResources' into context took 0.0 secs. -Up-to-date check for task ':processTestResources' took 0.093 secs. It is not up-to-date because: +Up-to-date check for task ':processTestResources' took 0.02 secs. It is not up-to-date because: No history is available. -:processTestResources (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.219 secs. +:processTestResources (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 0.057 secs. :testClasses (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :testClasses Skipping task ':testClasses' as it has no actions. @@ -2881,10 +2917,10 @@ :test (Thread[#57,Task worker for ':' Thread 2,5,main]) started. :test Putting task artifact state for task ':test' into context took 0.0 secs. -Up-to-date check for task ':test' took 1.044 secs. It is not up-to-date because: +Up-to-date check for task ':test' took 0.262 secs. It is not up-to-date because: Task.upToDateWhen is false. Starting process 'Gradle Test Executor 1'. Working directory: /build/reproducible-path/gkl-0.8.11+dfsg Command: /usr/lib/jvm/java-21-openjdk-amd64/bin/java -Ddebian.package=gkl -Dfile.separator=/ -Djava.class.path=/usr/share/gradle/lib/gradle-launcher-4.4.1.jar -Djava.class.version=65.0 -Djava.home=/usr/lib/jvm/java-21-openjdk-amd64 -Djava.library.path=:/build/reproducible-path/gkl-0.8.11+dfsg/build/native:/usr/java/packages/lib:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib -Djava.runtime.name=OpenJDK Runtime Environment -Djava.runtime.version=21.0.6+7-Debian-1 -Djava.specification.name=Java Platform API Specification -Djava.specification.vendor=Oracle Corporation -Djava.specification.version=21 -Djava.vendor=Debian -Djava.vendor.url=https://tracker.debian.org/openjdk-21 -Djava.vendor.url.bug=https://bugs.debian.org/openjdk-21 -Djava.version=21.0.6 -Djava.version.date=2025-01-21 -Djava.vm.compressedOopsMode=Zero based -Djava.vm.info=mixed mode, sharing -Djava.vm.name=OpenJDK 64-Bit Server VM -Djava.vm.specification.name=Java Virtual Machine Specification -Djava.vm.specification.vendor=Oracle Corporation -Djava.vm.specification.version=21 -Djava.vm.vendor=Debian -Djava.vm.version=21.0.6+7-Debian-1 -Djdk.debug=release -Dlibrary.jansi.path=/build/reproducible-path/gkl-0.8.11+dfsg/.gradle/native/jansi/null/linux64 -Dline.separator= - -Dnative.encoding=ANSI_X3.4-1968 -Dorg.gradle.appname=gradle -Dorg.gradle.jvmargs=-Xbootclasspath/a:/usr/share/java/gradle-helper-hook.jar:/usr/share/java/maven-repo-helper.jar -Dorg.gradle.native=false -Dos.arch=amd64 -Dos.name=Linux -Dos.version=6.12.12+bpo-amd64 -Dpath.separator=: -Dstderr.encoding=ANSI_X3.4-1968 -Dstdout.encoding=ANSI_X3.4-1968 -Dsun.arch.data.model=64 -Dsun.boot.library.path=/usr/lib/jvm/java-21-openjdk-amd64/lib -Dsun.cpu.endian=little -Dsun.io.unicode.encoding=UnicodeLittle -Dsun.java.command=org.gradle.launcher.daemon.bootstrap.GradleDaemon 4.4.1 -Dsun.java.launcher=SUN_STANDARD -Dsun.jnu.encoding=ANSI_X3.4-1968 -Dsun.management.compiler=HotSpot 64-Bit Tiered Compilers -Duser.dir=/build/reproducible-path/gkl-0.8.11+dfsg -Duser.home=. -Duser.name=debian -Duser.timezone=GMT-12:00 -Xcheck:jni -XX:+RestoreMXCSROnJNICalls @/tmp/gradle-worker-classpath1176234538306994639txt -Dfile.encoding=UTF-8 -Djava.io.tmpdir=/tmp -Duser.country=US -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 1' + -Dnative.encoding=ANSI_X3.4-1968 -Dorg.gradle.appname=gradle -Dorg.gradle.jvmargs=-Xbootclasspath/a:/usr/share/java/gradle-helper-hook.jar:/usr/share/java/maven-repo-helper.jar -Dorg.gradle.native=false -Dos.arch=amd64 -Dos.name=Linux -Dos.version=6.1.0-31-cloud-amd64 -Dpath.separator=: -Dstderr.encoding=ANSI_X3.4-1968 -Dstdout.encoding=ANSI_X3.4-1968 -Dsun.arch.data.model=64 -Dsun.boot.library.path=/usr/lib/jvm/java-21-openjdk-amd64/lib -Dsun.cpu.endian=little -Dsun.io.unicode.encoding=UnicodeLittle -Dsun.java.command=org.gradle.launcher.daemon.bootstrap.GradleDaemon 4.4.1 -Dsun.java.launcher=SUN_STANDARD -Dsun.jnu.encoding=ANSI_X3.4-1968 -Dsun.management.compiler=HotSpot 64-Bit Tiered Compilers -Duser.dir=/build/reproducible-path/gkl-0.8.11+dfsg -Duser.home=. -Duser.name=debian -Duser.timezone=GMT+14:00 -Xcheck:jni -XX:+RestoreMXCSROnJNICalls @/tmp/gradle-worker-classpath2948507259532567538txt -Dfile.encoding=UTF-8 -Djava.io.tmpdir=/tmp -Duser.country=US -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. @@ -2898,14 +2934,14 @@ Gradle suite > Gradle test > com.intel.gkl.compression.IntelDeflaterFactoryUnitTest.IntelDeflaterFactoryReturnsIntelDeflaterIfCompressionLevelIsNotOneOrTwoTest[2](2) SKIPPED Gradle Test Executor 1 finished executing tests. Results: SUCCESS (107 tests, 105 successes, 0 failures, 2 skipped) -Finished generating test XML results (0.067 secs) into: /build/reproducible-path/gkl-0.8.11+dfsg/build/test-results/test +Finished generating test XML results (0.015 secs) into: /build/reproducible-path/gkl-0.8.11+dfsg/build/test-results/test Generating HTML test report... -Finished generating test html results (0.161 secs) into: /build/reproducible-path/gkl-0.8.11+dfsg/build/reports/tests/test -:test (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 5 mins 47.103 secs. +Finished generating test html results (0.027 secs) into: /build/reproducible-path/gkl-0.8.11+dfsg/build/reports/tests/test +:test (Thread[#57,Task worker for ':' Thread 2,5,main]) completed. Took 56.669 secs. -BUILD SUCCESSFUL in 6m 17s +BUILD SUCCESSFUL in 1m 0s 7 actionable tasks: 5 executed, 2 up-to-date - rm -fr -- /tmp/dh-xdg-rundir-qykmhpSi + rm -fr -- /tmp/dh-xdg-rundir-NHrrd99I make[1]: Leaving directory '/build/reproducible-path/gkl-0.8.11+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=gradle @@ -2918,7 +2954,7 @@ install -m0755 -d debian/libgkl-jni/usr/lib/jni cp --reflink=auto -a ./build/native/libgkl_compression.so ./build/native/libgkl_pairhmm.so ./build/native/libgkl_pairhmm_omp.so ./build/native/libgkl_smithwaterman.so ./build/native/libgkl_utils.so debian/libgkl-jni/usr/lib/jni/ jh_installjavadoc -O--buildsystem=gradle -Duplicate specification "author|A=s" for option "A" +Duplicate specification "A" for option "A" Duplicate specification "A" for option "A" dh_installdocs -O--buildsystem=gradle install -m0755 -d debian/libgkl-java/usr/share/doc/libgkl-java @@ -2927,10 +2963,10 @@ install -m0755 -d debian/libgkl-jni/usr/share/doc/libgkl-jni install -p -m0644 debian/copyright debian/libgkl-jni/usr/share/doc/libgkl-jni/copyright dh_installchangelogs -O--buildsystem=gradle - install -m0755 -d debian/libgkl-java/usr/share/doc/libgkl-java - install -p -m0644 debian/.debhelper/generated/libgkl-java/dh_installchangelogs.dch.trimmed debian/libgkl-java/usr/share/doc/libgkl-java/changelog.Debian install -m0755 -d debian/libgkl-jni/usr/share/doc/libgkl-jni install -p -m0644 debian/.debhelper/generated/libgkl-jni/dh_installchangelogs.dch.trimmed debian/libgkl-jni/usr/share/doc/libgkl-jni/changelog.Debian + install -m0755 -d debian/libgkl-java/usr/share/doc/libgkl-java + install -p -m0644 debian/.debhelper/generated/libgkl-java/dh_installchangelogs.dch.trimmed debian/libgkl-java/usr/share/doc/libgkl-java/changelog.Debian dh_installsystemduser -O--buildsystem=gradle dh_lintian -O--buildsystem=gradle install -m0755 -d debian/libgkl-jni/usr/share/lintian/overrides @@ -2953,8 +2989,8 @@ Duplicate specification "version|V" for option "V" Duplicate specification "version|V" for option "V" find debian/libgkl-java -name '*.jar' - Found usr/share/java/gkl-0.8.11.jar Found symlink usr/share/java/gkl.jar + Found usr/share/java/gkl-0.8.11.jar Reading manifest from debian/libgkl-java/usr/share/java/gkl-0.8.11.jar No update of debian/libgkl-java/usr/share/java/gkl-0.8.11.jar required. find debian/libgkl-jni -name '*.jar' @@ -3012,8 +3048,8 @@ cd debian/libgkl-jni chmod a-x usr/share/doc/libgkl-java/changelog.Debian chmod a-x usr/share/doc/libgkl-jni/changelog.Debian - gzip -9nf usr/share/doc/libgkl-jni/changelog.Debian gzip -9nf usr/share/doc/libgkl-java/changelog.Debian + gzip -9nf usr/share/doc/libgkl-jni/changelog.Debian cd '/build/reproducible-path/gkl-0.8.11+dfsg' cd '/build/reproducible-path/gkl-0.8.11+dfsg' dh_fixperms -O--buildsystem=gradle @@ -3021,10 +3057,10 @@ find debian/libgkl-jni ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libgkl-java/usr/share/doc -type f -a -true -a ! -regex 'debian/libgkl-java/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libgkl-jni/usr/share/doc -type f -a -true -a ! -regex 'debian/libgkl-jni/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libgkl-jni/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libgkl-java/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/libgkl-jni/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libgkl-jni/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libgkl-java -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libgkl-jni/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libgkl-jni -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libgkl-jni/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -O--buildsystem=gradle @@ -3039,11 +3075,6 @@ chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/d9/088b51e71c210630e3e252dfec51cd1c31b6b6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libgkl-jni/usr/lib/jni/libgkl_compression.so objcopy --add-gnu-debuglink debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/d9/088b51e71c210630e3e252dfec51cd1c31b6b6.debug debian/libgkl-jni/usr/lib/jni/libgkl_compression.so - install -m0755 -d debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/c9 - objcopy --only-keep-debug --compress-debug-sections debian/libgkl-jni/usr/lib/jni/libgkl_utils.so debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/c9/397b6eb8178f827ec3282037e7718a755e0bfb.debug - chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/c9/397b6eb8178f827ec3282037e7718a755e0bfb.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libgkl-jni/usr/lib/jni/libgkl_utils.so - objcopy --add-gnu-debuglink debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/c9/397b6eb8178f827ec3282037e7718a755e0bfb.debug debian/libgkl-jni/usr/lib/jni/libgkl_utils.so install -m0755 -d debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/b2 objcopy --only-keep-debug --compress-debug-sections debian/libgkl-jni/usr/lib/jni/libgkl_pairhmm.so debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/b2/3ac6f970d9338fb33f4008ec68b98f7daf70d9.debug chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/b2/3ac6f970d9338fb33f4008ec68b98f7daf70d9.debug @@ -3054,6 +3085,11 @@ chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/d7/e9ece86ef5432da0426b13a3ae6cb0479c85dd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libgkl-jni/usr/lib/jni/libgkl_smithwaterman.so objcopy --add-gnu-debuglink debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/d7/e9ece86ef5432da0426b13a3ae6cb0479c85dd.debug debian/libgkl-jni/usr/lib/jni/libgkl_smithwaterman.so + install -m0755 -d debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/c9 + objcopy --only-keep-debug --compress-debug-sections debian/libgkl-jni/usr/lib/jni/libgkl_utils.so debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/c9/397b6eb8178f827ec3282037e7718a755e0bfb.debug + chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/c9/397b6eb8178f827ec3282037e7718a755e0bfb.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libgkl-jni/usr/lib/jni/libgkl_utils.so + objcopy --add-gnu-debuglink debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/c9/397b6eb8178f827ec3282037e7718a755e0bfb.debug debian/libgkl-jni/usr/lib/jni/libgkl_utils.so install -m0755 -d debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/bb objcopy --only-keep-debug --compress-debug-sections debian/libgkl-jni/usr/lib/jni/libgkl_pairhmm_omp.so debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/bb/b72d101ded5e9f80b6f45f670351ef627dd9b0.debug chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/usr/lib/debug/.build-id/bb/b72d101ded5e9f80b6f45f670351ef627dd9b0.debug @@ -3070,7 +3106,7 @@ rm -f debian/libgkl-jni/DEBIAN/shlibs dh_shlibdeps -a -O--buildsystem=gradle install -m0755 -d debian/libgkl-jni/DEBIAN - dpkg-shlibdeps -Tdebian/libgkl-jni.substvars debian/libgkl-jni/usr/lib/jni/libgkl_compression.so debian/libgkl-jni/usr/lib/jni/libgkl_utils.so debian/libgkl-jni/usr/lib/jni/libgkl_pairhmm.so debian/libgkl-jni/usr/lib/jni/libgkl_smithwaterman.so debian/libgkl-jni/usr/lib/jni/libgkl_pairhmm_omp.so + dpkg-shlibdeps -Tdebian/libgkl-jni.substvars debian/libgkl-jni/usr/lib/jni/libgkl_compression.so debian/libgkl-jni/usr/lib/jni/libgkl_pairhmm.so debian/libgkl-jni/usr/lib/jni/libgkl_smithwaterman.so debian/libgkl-jni/usr/lib/jni/libgkl_utils.so debian/libgkl-jni/usr/lib/jni/libgkl_pairhmm_omp.so dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect @@ -3079,23 +3115,23 @@ install -m0755 -d debian/libgkl-java/DEBIAN install -m0755 -d debian/libgkl-jni/DEBIAN dh_gencontrol -O--buildsystem=gradle + install -m0755 -d debian/libgkl-java/DEBIAN + echo misc:Depends= >> debian/libgkl-java.substvars + echo misc:Pre-Depends= >> debian/libgkl-java.substvars + dpkg-gencontrol -plibgkl-java -ldebian/changelog -Tdebian/libgkl-java.substvars -cdebian/control -Pdebian/libgkl-java install -m0755 -d debian/libgkl-jni/DEBIAN echo misc:Depends= >> debian/libgkl-jni.substvars echo misc:Pre-Depends= >> debian/libgkl-jni.substvars install -m0755 -d debian/.debhelper/libgkl-jni/dbgsym-root/DEBIAN dpkg-gencontrol -plibgkl-jni -ldebian/changelog -Tdebian/libgkl-jni.substvars -cdebian/control -Pdebian/.debhelper/libgkl-jni/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=libgkl-jni-dbgsym "-DDepends=libgkl-jni (= \${binary:Version})" "-DDescription=debug symbols for libgkl-jni" "-DBuild-Ids=b23ac6f970d9338fb33f4008ec68b98f7daf70d9 bbb72d101ded5e9f80b6f45f670351ef627dd9b0 c9397b6eb8178f827ec3282037e7718a755e0bfb d7e9ece86ef5432da0426b13a3ae6cb0479c85dd d9088b51e71c210630e3e252dfec51cd1c31b6b6" -DSection=debug -UMulti-Arch -UReplaces -UBreaks - install -m0755 -d debian/libgkl-java/DEBIAN - echo misc:Depends= >> debian/libgkl-java.substvars - echo misc:Pre-Depends= >> debian/libgkl-java.substvars - dpkg-gencontrol -plibgkl-java -ldebian/changelog -Tdebian/libgkl-java.substvars -cdebian/control -Pdebian/libgkl-java - chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/DEBIAN/control - dpkg-gencontrol -plibgkl-jni -ldebian/changelog -Tdebian/libgkl-jni.substvars -cdebian/control -Pdebian/libgkl-jni dpkg-gencontrol: warning: Depends field of package libgkl-java: substitution variable ${maven:Depends} used, but is not defined chmod 0644 -- debian/libgkl-java/DEBIAN/control + chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/DEBIAN/control + dpkg-gencontrol -plibgkl-jni -ldebian/changelog -Tdebian/libgkl-jni.substvars -cdebian/control -Pdebian/libgkl-jni chmod 0644 -- debian/libgkl-jni/DEBIAN/control dh_md5sums -O--buildsystem=gradle - install -m0755 -d debian/libgkl-jni/DEBIAN install -m0755 -d debian/libgkl-java/DEBIAN + install -m0755 -d debian/libgkl-jni/DEBIAN cd debian/libgkl-java >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/libgkl-jni >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libgkl-java/DEBIAN/md5sums @@ -3104,9 +3140,9 @@ cd debian/.debhelper/libgkl-jni/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/libgkl-jni/dbgsym-root/DEBIAN/md5sums dh_builddeb -O--buildsystem=gradle - dpkg-deb --root-owner-group --build debian/.debhelper/libgkl-jni/dbgsym-root .. - dpkg-deb --root-owner-group --build debian/libgkl-jni .. dpkg-deb --root-owner-group --build debian/libgkl-java .. + dpkg-deb --root-owner-group --build debian/libgkl-jni .. + dpkg-deb --root-owner-group --build debian/.debhelper/libgkl-jni/dbgsym-root .. dpkg-deb: building package 'libgkl-java' in '../libgkl-java_0.8.11+dfsg-2_all.deb'. dpkg-deb: building package 'libgkl-jni' in '../libgkl-jni_0.8.11+dfsg-2_amd64.deb'. dpkg-deb: building package 'libgkl-jni-dbgsym' in '../libgkl-jni-dbgsym_0.8.11+dfsg-2_amd64.deb'. @@ -3117,12 +3153,14 @@ 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/3594073/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3594073/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/1409059 and its subdirectories -I: Current time: Tue Apr 7 15:28:16 -12 2026 -I: pbuilder-time-stamp: 1775618896 +I: removing directory /srv/workspace/pbuilder/3594073 and its subdirectories +I: Current time: Thu Mar 6 11:10:02 +14 2025 +I: pbuilder-time-stamp: 1741209002