simple 03-Sep-2024 12:26:07 Build Jalview Builds - Getdown DEVELOP Launchers - spike-JAL-4386_merge_with_develop - Default Job #1 (JB-GDL22-JOB1-1) started building on agent Default Agent simple 03-Sep-2024 12:26:07 simple 03-Sep-2024 12:26:07 Build working directory is /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1 simple 03-Sep-2024 12:26:07 Executing build Jalview Builds - Getdown DEVELOP Launchers - spike-JAL-4386_merge_with_develop - Default Job #1 (JB-GDL22-JOB1-1) simple 03-Sep-2024 12:26:07 Starting task 'Checkout Default Repository' of type 'com.atlassian.bamboo.plugins.vcs:task.vcs.checkout' simple 03-Sep-2024 12:26:07 Checking out into /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1 simple 03-Sep-2024 12:26:07 Updating source code to revision: 8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52 simple 03-Sep-2024 12:26:07 Fetching 'refs/heads/spike/JAL-4386_merge_with_develop' from 'http://source.jalview.org/git/jalview.git'. simple 03-Sep-2024 12:26:07 Checking out revision 8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52. simple 03-Sep-2024 12:26:07 Creating local git repository in '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/.git'. simple 03-Sep-2024 12:26:07 Cloning into '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1'... simple 03-Sep-2024 12:26:07 done. simple 03-Sep-2024 12:26:12 Branch spike/JAL-4386_merge_with_develop set up to track remote branch spike/JAL-4386_merge_with_develop from origin. simple 03-Sep-2024 12:26:12 Switched to a new branch 'spike/JAL-4386_merge_with_develop' simple 03-Sep-2024 12:26:12 Updated source code to revision: 8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52 simple 03-Sep-2024 12:26:12 Finished task 'Checkout Default Repository' with result: Success simple 03-Sep-2024 12:26:12 Running pre-build action: VCS Version Collector simple 03-Sep-2024 12:26:12 Running pre-build action: Artifactory Release Staging command 03-Sep-2024 12:26:12 Substituting variable: ${bamboo.planKey} with JB-GDL22 simple 03-Sep-2024 12:26:12 Starting task 'Jalview Develop Launcher JVL (Java 11)' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' simple 03-Sep-2024 12:26:12 Bamboo Artifactory Plugin version: 2.6.2 command 03-Sep-2024 12:26:12 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Launchers - spike-JAL-4386_merge_with_develop - Default Job #1 (JB-GDL22-JOB1-1)'\n ... running command line: \n/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=BUILD -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GDL22 -Pbamboo_buildResultsUrl=${bamboo_buildResultsUrl} -Pbamboo_buildResultKey=${bamboo_buildResultKey} clean getdown\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=spike/JAL-4386_merge_with_develop\nbamboo_dependency_parent_0=JB-GDB618-2\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nCATALINA_PID=/home/bamboo/latest/work/bamboo.pid\nbamboo_dependency_parent_total=1\nbamboo_planRepository_1_branchDisplayName=spike/JAL-4386_merge_with_develop\nbamboo_repository_revision_number=8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDL22-JOB1-1\nJAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDL22-JOB1\nbamboo_shortPlanName=spike-JAL-4386_merge_with_develop\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46498070_branch_name=spike/JAL-4386_merge_with_develop\nLOGNAME=bamboo\nbamboo_buildNumber=1\nPWD=/\nbamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GDL22-JOB1-1\nbamboo_repository_46498070_git_username=\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nSHELL=/bin/bash\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Launchers - spike-JAL-4386_merge_with_develop\nbamboo_shortPlanKey=GDL22\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52\nbamboo_buildTimeStamp=2024-09-03T12:25:05.040+01:00\nbamboo_repository_46498070_git_branch=spike/JAL-4386_merge_with_develop\nbamboo_repository_git_branch=spike/JAL-4386_merge_with_develop\nbamboo_buildResultKey=JB-GDL22-JOB1-1\nbamboo_repository_branch_name=spike/JAL-4386_merge_with_develop\nbamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Launchers - spike-JAL-4386_merge_with_develop - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52\nSHLVL=1\nbamboo_CHANNEL=DEVELOP\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_repository_name=Jalview Git\nJAVA_HOME=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/\nLANG=en_GB.UTF-8\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=spike/JAL-4386_merge_with_develop\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_branchDisplayName=spike/JAL-4386_merge_with_develop\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=spike/JAL-4386_merge_with_develop\n_=/usr/bin/java\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_repository_46498070_name=Jalview Git\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301739\nbamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle\nbamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=gitv2\nUSER=bamboo\nbamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_46498070_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_46498070_revision_number=8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52\nbamboo_capability_system_builder_ant_Ant=/usr/share/ant\nbamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven\nbamboo_tmp_directory=/srv/bamboo/bamboo-home/temp\nbamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1\nbamboo_planKey=JB-GDL22\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nHOME=/home/bamboo\nbamboo_planRepository_1_branchName=spike/JAL-4386_merge_with_develop\nPATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin\n build 03-Sep-2024 12:26:14 build 03-Sep-2024 12:26:14 > Configure project : build 03-Sep-2024 12:26:14 Using properties from file './utils/channels/default/channel_gradle.properties' build 03-Sep-2024 12:26:14 JALVIEW_VERSION is set to '2.11.4.0' build 03-Sep-2024 12:26:14 HEADLESS BUILD build 03-Sep-2024 12:26:14 J2S ENABLED build 03-Sep-2024 12:26:14 Using a BUILD profile. build 03-Sep-2024 12:26:14 eclipseDir exists build 03-Sep-2024 12:26:14 build 03-Sep-2024 12:26:14 > Task :clean build 03-Sep-2024 12:26:14 > Task :cleanPackageDir UP-TO-DATE build 03-Sep-2024 12:26:14 > Task :getdownImagesCopy build 03-Sep-2024 12:26:14 > Task :getdownImagesProcess build 03-Sep-2024 12:26:14 > Task :getdownImages build 03-Sep-2024 12:26:14 > Task :copyHelp build 03-Sep-2024 12:26:17 > Task :buildIndices build 03-Sep-2024 12:26:17 > Task :copyResources build 03-Sep-2024 12:26:17 > Task :copyChannelResources build 03-Sep-2024 12:26:17 build 03-Sep-2024 12:26:17 > Task :createBuildProperties build 03-Sep-2024 12:26:17 Execution optimizations have been disabled for task ':createBuildProperties' to ensure correctness due to the following reasons: build 03-Sep-2024 12:26:17 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/resources_build'. Reason: Task ':createBuildProperties' uses this output of task ':copyChannelResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:17 build 03-Sep-2024 12:26:17 > Task :buildResources build 03-Sep-2024 12:26:17 > Task :copyDocs build 03-Sep-2024 12:26:17 build 03-Sep-2024 12:26:17 > Task :convertMdFiles build 03-Sep-2024 12:26:17 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/doc_build/doc/README-DMG_creation.html build 03-Sep-2024 12:26:17 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/doc_build/doc/releaseprocess.html build 03-Sep-2024 12:26:17 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/doc_build/doc/README-DMG_background_image_creation.html build 03-Sep-2024 12:26:17 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/doc_build/doc/building.html build 03-Sep-2024 12:26:17 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/doc_build/doc/jalview-projects.html build 03-Sep-2024 12:26:17 build 03-Sep-2024 12:26:17 > Task :releasesTemplates build 03-Sep-2024 12:26:17 Execution optimizations have been disabled for task ':releasesTemplates' to ensure correctness due to the following reasons: build 03-Sep-2024 12:26:17 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/help_build/help/html/releases.html'. Reason: Task ':buildIndices' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:17 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/help_build/help/html/whatsNew.html'. Reason: Task ':buildIndices' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:17 build 03-Sep-2024 12:26:17 > Task :prepare build 03-Sep-2024 12:26:19 build 03-Sep-2024 12:26:19 > Task :compileJava build 03-Sep-2024 12:26:19 Setting target compatibility to 11 error 03-Sep-2024 12:26:26 Note: Some input files use or override a deprecated API. error 03-Sep-2024 12:26:26 Note: Recompile with -Xlint:deprecation for details. error 03-Sep-2024 12:26:26 Note: Some input files use unchecked or unsafe operations. error 03-Sep-2024 12:26:26 Note: Recompile with -Xlint:unchecked for details. build 03-Sep-2024 12:26:27 build 03-Sep-2024 12:26:27 > Task :processResources build 03-Sep-2024 12:26:27 Execution optimizations have been disabled for task ':processResources' to ensure correctness due to the following reasons: build 03-Sep-2024 12:26:27 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/doc_build'. Reason: Task ':processResources' uses this output of task ':copyDocs' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:27 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':buildIndices' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:27 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':copyHelp' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:27 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:27 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':copyChannelResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:27 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':copyResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:27 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':createBuildProperties' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:27 build 03-Sep-2024 12:26:27 > Task :classes build 03-Sep-2024 12:26:29 build 03-Sep-2024 12:26:29 > Task :compileLinkCheck build 03-Sep-2024 12:26:29 Execution optimizations have been disabled for task ':compileLinkCheck' to ensure correctness due to the following reasons: build 03-Sep-2024 12:26:29 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/utils'. Reason: Task ':convertMdFiles' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:29 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/utils'. Reason: Task ':copyChannelResources' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:29 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1/utils'. Reason: Task ':getdownImagesCopy' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 03-Sep-2024 12:26:31 build 03-Sep-2024 12:26:31 > Task :linkCheck build 03-Sep-2024 12:26:31 Checking help file links build 03-Sep-2024 12:26:31 build 03-Sep-2024 12:26:31 Results: build 03-Sep-2024 12:26:31 156 distinct help targets build 03-Sep-2024 12:26:31 156 help mappings build 03-Sep-2024 12:26:31 0 invalid targets build 03-Sep-2024 12:26:31 31 unused targets build 03-Sep-2024 12:26:31 uniprotfetcher: html/features/uniprotsequencefetcher.html build 03-Sep-2024 12:26:31 overviewprefs: html/features/preferences.html#overview build 03-Sep-2024 12:26:31 cdnafeatures: html/features/codingfeatures.html build 03-Sep-2024 12:26:31 startupprefs: html/features/preferences.html#startup build 03-Sep-2024 12:26:31 ensemblfetch: html/features/ensemblsequencefetcher.html build 03-Sep-2024 12:26:31 io.modellerpir: html/io/modellerpir.html build 03-Sep-2024 12:26:31 structureandpaefromfile: html/features/structurechooser.html#loadfromfile build 03-Sep-2024 12:26:31 pdbmcviewer: html/features/pdbviewer.html build 03-Sep-2024 12:26:31 groovy.colours: html/features/groovy.html#groovyColours build 03-Sep-2024 12:26:31 seqmappings: html/features/seqmappings.html build 03-Sep-2024 12:26:31 uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts build 03-Sep-2024 12:26:31 splitframe.mirrorfonts: html/features/splitView.html#mirror build 03-Sep-2024 12:26:31 subtMatrices.pam250: html/calculations/scorematrices.html#pam250 build 03-Sep-2024 12:26:31 search: html/features/search.html build 03-Sep-2024 12:26:31 viewingpdbs.reps: html/features/viewingpdbs.html#viewreps build 03-Sep-2024 12:26:31 alformats: html/io/fileformats.html build 03-Sep-2024 12:26:31 strucprefs: html/features/preferences.html#structure build 03-Sep-2024 12:26:31 siftsmapping: html/features/siftsmapping.html build 03-Sep-2024 12:26:31 chimera.annotxfer: html/features/chimera.html#annotxfer build 03-Sep-2024 12:26:31 pdbfts: html/features/pdbsequencefetcher.html#pdbfts build 03-Sep-2024 12:26:31 newkeys: html/features/newkeystrokes.html build 03-Sep-2024 12:26:31 importvcf.attribs: html/features/importvcf.html#attribs build 03-Sep-2024 12:26:31 seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature build 03-Sep-2024 12:26:31 structuresvia3dbeacons: html/features/structurechooser.html#3dbeaconssearch build 03-Sep-2024 12:26:31 jalarchive: html/features/jalarchive.html build 03-Sep-2024 12:26:31 newsreader: html/webServices/newsreader.html build 03-Sep-2024 12:26:31 jalviewcltool: html/features/commandline.html#script build 03-Sep-2024 12:26:31 popMenuAddref: html/menus/popupMenu.html#addrefannot build 03-Sep-2024 12:26:31 splitframe.virtualfeats: html/features/splitView.html#virtualfeats build 03-Sep-2024 12:26:31 paematrixformat: html/io/paematrixformat.html build 03-Sep-2024 12:26:31 overview: html/features/overview.html build 03-Sep-2024 12:26:31 0 invalid map urls build 03-Sep-2024 12:26:31 0 invalid image attributes build 03-Sep-2024 12:26:31 482 internal href links (106 with anchors) build 03-Sep-2024 12:26:31 0 invalid internal href links build 03-Sep-2024 12:26:31 0 invalid internal anchor links build 03-Sep-2024 12:26:31 111 external href links build 03-Sep-2024 12:26:31 External links not verified as internet not available build 03-Sep-2024 12:26:31 *** Success *** build 03-Sep-2024 12:26:32 build 03-Sep-2024 12:26:32 > Task :jar build 03-Sep-2024 12:26:32 > Task :syncJars build 03-Sep-2024 12:26:32 > Task :makeDist build 03-Sep-2024 12:26:32 > Task :getdownWebsiteBuild error 03-Sep-2024 12:26:34 2024/09/03 12:26:32:833 WARNING Starting without install4j classes error 03-Sep-2024 12:26:34 2024/09/03 12:26:33:382 WARNING Starting without install4j classes build 03-Sep-2024 12:26:34 build 03-Sep-2024 12:26:34 > Task :getdownDigest build 03-Sep-2024 12:26:34 Generating digest file './build/website/docroot/getdown/default/11/digest.txt'... build 03-Sep-2024 12:26:34 Generating digest file './build/website/docroot/getdown/default/11/digest2.txt'... build 03-Sep-2024 12:26:34 build 03-Sep-2024 12:26:34 > Task :getdown build 03-Sep-2024 12:26:34 build 03-Sep-2024 12:26:34 Deprecated Gradle features were used in this build, making it incompatible with Gradle 8.0. build 03-Sep-2024 12:26:34 build 03-Sep-2024 12:26:34 You can use '--warning-mode all' to show the individual deprecation warnings and determine if they come from your own scripts or plugins. build 03-Sep-2024 12:26:34 build 03-Sep-2024 12:26:34 See https://docs.gradle.org/7.4.2/userguide/command_line_interface.html#sec:command_line_warnings build 03-Sep-2024 12:26:34 build 03-Sep-2024 12:26:34 Execution optimizations have been disabled for 4 invalid unit(s) of work during this build to ensure correctness. build 03-Sep-2024 12:26:34 Please consult deprecation warnings for more details. build 03-Sep-2024 12:26:34 build 03-Sep-2024 12:26:34 BUILD SUCCESSFUL in 20s build 03-Sep-2024 12:26:34 21 actionable tasks: 20 executed, 1 up-to-date simple 03-Sep-2024 12:26:34 Finished task 'Jalview Develop Launcher JVL (Java 11)' with result: Success simple 03-Sep-2024 12:26:34 Starting task 'Copy JVL file and produce link in HTML' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' command 03-Sep-2024 12:26:34 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Launchers - spike-JAL-4386_merge_with_develop - Default Job #1 (JB-GDL22-JOB1-1)'\n ... running command line: \n/srv/bamboo/bamboo-home/temp/JB-GDL22-JOB1-1-ScriptBuildTask-2540412840010830796.sh\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=spike/JAL-4386_merge_with_develop\nbamboo_dependency_parent_0=JB-GDB618-2\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nbamboo_dependency_parent_total=1\nbamboo_planRepository_1_branchDisplayName=spike/JAL-4386_merge_with_develop\nbamboo_repository_revision_number=8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDL22-JOB1-1\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDL22-JOB1\nbamboo_shortPlanName=spike-JAL-4386_merge_with_develop\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46498070_branch_name=spike/JAL-4386_merge_with_develop\nbamboo_buildNumber=1\nbamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GDL22-JOB1-1\nbamboo_repository_46498070_git_username=\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Launchers - spike-JAL-4386_merge_with_develop\nbamboo_shortPlanKey=GDL22\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52\nbamboo_buildTimeStamp=2024-09-03T12:25:05.040+01:00\nbamboo_repository_46498070_git_branch=spike/JAL-4386_merge_with_develop\nbamboo_repository_git_branch=spike/JAL-4386_merge_with_develop\nbamboo_buildResultKey=JB-GDL22-JOB1-1\nbamboo_repository_branch_name=spike/JAL-4386_merge_with_develop\nbamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Launchers - spike-JAL-4386_merge_with_develop - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52\nbamboo_CHANNEL=DEVELOP\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_repository_name=Jalview Git\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_2=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=BUILD -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GDL22 -Pbamboo_buildResultsUrl=${bamboo_buildResultsUrl} -Pbamboo_buildResultKey=${bamboo_buildResultKey} clean getdown\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=spike/JAL-4386_merge_with_develop\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_branchDisplayName=spike/JAL-4386_merge_with_develop\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=spike/JAL-4386_merge_with_develop\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_repository_46498070_name=Jalview Git\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301739\nbamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle\nbamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=gitv2\nbamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_46498070_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_46498070_revision_number=8f444ff1b9acc2753ed34bfdc2e2c46f4aaebe52\nbamboo_capability_system_builder_ant_Ant=/usr/share/ant\nbamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven\nbamboo_tmp_directory=/srv/bamboo/bamboo-home/temp\nbamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL22-JOB1\nbamboo_planKey=JB-GDL22\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_planRepository_1_branchName=spike/JAL-4386_merge_with_develop\n simple 03-Sep-2024 12:26:34 Finished task 'Copy JVL file and produce link in HTML' with result: Success simple 03-Sep-2024 12:26:34 Running post build plugin 'NCover Results Collector' simple 03-Sep-2024 12:26:34 Running post build plugin 'Artifact Copier' simple 03-Sep-2024 12:26:34 Publishing an artifact: getdown simple 03-Sep-2024 12:26:34 Finished publishing of artifact Shared artifact: [getdown], pattern: [**/*] anchored at: [build/website/docroot/getdown/default/11] in 94.27 ms simple 03-Sep-2024 12:26:34 Running post build plugin 'Artifactory Release Management Staging' simple 03-Sep-2024 12:26:34 Running post build plugin 'Artifactory Build Info Copier' simple 03-Sep-2024 12:26:34 Running post build plugin 'Artifactory Gradle Properties Info Copier' simple 03-Sep-2024 12:26:34 Running post build plugin 'npm Cache Cleanup' simple 03-Sep-2024 12:26:34 Running post build plugin 'Clover Results Collector' simple 03-Sep-2024 12:26:34 Running post build plugin 'Docker Container Cleanup' simple 03-Sep-2024 12:26:34 Finalising the build... simple 03-Sep-2024 12:26:34 Stopping timer. simple 03-Sep-2024 12:26:34 Build JB-GDL22-JOB1-1 completed. simple 03-Sep-2024 12:26:34 Running on server: post build plugin 'NCover Results Collector' simple 03-Sep-2024 12:26:34 Running on server: post build plugin 'Build Hanging Detection Configuration' simple 03-Sep-2024 12:26:34 Running on server: post build plugin 'Clover Delta Calculator' simple 03-Sep-2024 12:26:34 Running on server: post build plugin 'Maven Dependencies Postprocessor' simple 03-Sep-2024 12:26:34 All post build plugins have finished simple 03-Sep-2024 12:26:34 Generating build results summary... simple 03-Sep-2024 12:26:34 Saving build results to disk... simple 03-Sep-2024 12:26:34 Logging substituted variables... simple 03-Sep-2024 12:26:34 Indexing build results... simple 03-Sep-2024 12:26:34 Finished building JB-GDL22-JOB1-1.