simple 13-Nov-2024 16:34:45 Build Jalview Builds - Getdown DEVELOP Launchers - patch-JAL-4077_jmolsaveloadwindows - Default Job #1 (JB-GDL43-JOB1-1) started building on agent Default Agent simple 13-Nov-2024 16:34:45 simple 13-Nov-2024 16:34:45 Build working directory is /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1 simple 13-Nov-2024 16:34:45 Executing build Jalview Builds - Getdown DEVELOP Launchers - patch-JAL-4077_jmolsaveloadwindows - Default Job #1 (JB-GDL43-JOB1-1) simple 13-Nov-2024 16:34:45 Starting task 'Checkout Default Repository' of type 'com.atlassian.bamboo.plugins.vcs:task.vcs.checkout' simple 13-Nov-2024 16:34:45 Checking out into /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1 simple 13-Nov-2024 16:34:45 Updating source code to revision: 278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7 simple 13-Nov-2024 16:34:45 Fetching 'refs/heads/patch/JAL-4077_jmolsaveloadwindows' from 'http://source.jalview.org/git/jalview.git'. simple 13-Nov-2024 16:34:45 Checking out revision 278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7. simple 13-Nov-2024 16:34:45 Creating local git repository in '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1/.git'. simple 13-Nov-2024 16:34:45 Cloning into '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1'... simple 13-Nov-2024 16:34:45 done. simple 13-Nov-2024 16:34:53 Switched to a new branch 'patch/JAL-4077_jmolsaveloadwindows' simple 13-Nov-2024 16:34:53 Branch patch/JAL-4077_jmolsaveloadwindows set up to track remote branch patch/JAL-4077_jmolsaveloadwindows from origin. simple 13-Nov-2024 16:34:53 Updated source code to revision: 278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7 simple 13-Nov-2024 16:34:53 Finished task 'Checkout Default Repository' with result: Success simple 13-Nov-2024 16:34:53 Running pre-build action: VCS Version Collector simple 13-Nov-2024 16:34:53 Running pre-build action: Artifactory Release Staging command 13-Nov-2024 16:34:53 Substituting variable: ${bamboo.planKey} with JB-GDL43 simple 13-Nov-2024 16:34:53 Starting task 'Jalview Develop Launcher JVL (Java 11)' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' simple 13-Nov-2024 16:34:53 Bamboo Artifactory Plugin version: 2.6.2 command 13-Nov-2024 16:34:53 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Launchers - patch-JAL-4077_jmolsaveloadwindows - Default Job #1 (JB-GDL43-JOB1-1)'\n ... running command line: \n/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=BUILD -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GDL43 -Pbamboo_buildResultsUrl=${bamboo_buildResultsUrl} -Pbamboo_buildResultKey=${bamboo_buildResultKey} clean getdown\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=patch/JAL-4077_jmolsaveloadwindows\nbamboo_dependency_parent_0=JB-GDB645-1\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=patch/JAL-4077_jmolsaveloadwindows\nbamboo_repository_revision_number=278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDL43-JOB1-1\nbamboo_repository_46498204_git_username=\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-GDL43-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDL43-JOB1\nbamboo_shortPlanName=patch-JAL-4077_jmolsaveloadwindows\nbamboo_planRepository_name=Jalview Git\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-GDL43-JOB1-1\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nSHELL=/bin/bash\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Launchers - patch-JAL-4077_jmolsaveloadwindows\nbamboo_shortPlanKey=GDL43\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7\nbamboo_buildTimeStamp=2024-11-13T16:20:50.595Z\nbamboo_repository_git_branch=patch/JAL-4077_jmolsaveloadwindows\nbamboo_buildResultKey=JB-GDL43-JOB1-1\nbamboo_repository_branch_name=patch/JAL-4077_jmolsaveloadwindows\nbamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Launchers - patch-JAL-4077_jmolsaveloadwindows - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_repository_46498204_branch_name=patch/JAL-4077_jmolsaveloadwindows\nbamboo_planRepository_1_revision=278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7\nSHLVL=1\nbamboo_CHANNEL=DEVELOP\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_repository_name=Jalview Git\nbamboo_repository_46498204_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=patch/JAL-4077_jmolsaveloadwindows\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_46498204_git_branch=patch/JAL-4077_jmolsaveloadwindows\nbamboo_repository_git_username=\nbamboo_planRepository_branchDisplayName=patch/JAL-4077_jmolsaveloadwindows\nbamboo_repository_46498204_revision_number=278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=patch/JAL-4077_jmolsaveloadwindows\n_=/usr/bin/java\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46302007\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_46498204_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\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-GDL43-JOB1\nbamboo_planKey=JB-GDL43\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nHOME=/home/bamboo\nbamboo_planRepository_1_branchName=patch/JAL-4077_jmolsaveloadwindows\nPATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin\n build 13-Nov-2024 16:34:54 build 13-Nov-2024 16:34:54 > Configure project : build 13-Nov-2024 16:34:54 Using properties from file './utils/channels/default/channel_gradle.properties' build 13-Nov-2024 16:34:54 JALVIEW_VERSION is set to '2.11.4.2' build 13-Nov-2024 16:34:54 HEADLESS BUILD build 13-Nov-2024 16:34:54 J2S ENABLED build 13-Nov-2024 16:34:54 Using a BUILD profile. build 13-Nov-2024 16:34:54 eclipseDir exists build 13-Nov-2024 16:34:54 build 13-Nov-2024 16:34:54 > Task :clean build 13-Nov-2024 16:34:54 > Task :cleanPackageDir UP-TO-DATE build 13-Nov-2024 16:34:54 > Task :getdownImagesCopy build 13-Nov-2024 16:34:54 > Task :getdownImagesProcess build 13-Nov-2024 16:34:54 > Task :getdownImages build 13-Nov-2024 16:34:54 > Task :copyHelp build 13-Nov-2024 16:34:57 > Task :buildIndices build 13-Nov-2024 16:34:57 > Task :copyResources build 13-Nov-2024 16:34:57 > Task :copyChannelResources build 13-Nov-2024 16:34:57 build 13-Nov-2024 16:34:57 > Task :createBuildProperties build 13-Nov-2024 16:34:57 Execution optimizations have been disabled for task ':createBuildProperties' to ensure correctness due to the following reasons: build 13-Nov-2024 16:34:57 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:34:57 build 13-Nov-2024 16:34:57 > Task :buildResources build 13-Nov-2024 16:34:57 > Task :copyDocs build 13-Nov-2024 16:34:57 build 13-Nov-2024 16:34:57 > Task :convertMdFiles build 13-Nov-2024 16:34:57 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1/build/resources/doc_build/doc/README-DMG_creation.html build 13-Nov-2024 16:34:57 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1/build/resources/doc_build/doc/releaseprocess.html build 13-Nov-2024 16:34:57 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1/build/resources/doc_build/doc/README-DMG_background_image_creation.html build 13-Nov-2024 16:34:57 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1/build/resources/doc_build/doc/building.html build 13-Nov-2024 16:34:57 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1/build/resources/doc_build/doc/jalview-projects.html build 13-Nov-2024 16:34:57 build 13-Nov-2024 16:34:57 > Task :releasesTemplates build 13-Nov-2024 16:34:57 Execution optimizations have been disabled for task ':releasesTemplates' to ensure correctness due to the following reasons: build 13-Nov-2024 16:34:57 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:34:57 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:34:57 Stripping rc/test/etc for 2_11_4_2 build 13-Nov-2024 16:34:57 Looking in /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1/help/markdown/whatsnew/whatsnew-2_11_4_2.md build 13-Nov-2024 16:34:57 build 13-Nov-2024 16:34:57 > Task :prepare build 13-Nov-2024 16:34:59 build 13-Nov-2024 16:34:59 > Task :compileJava build 13-Nov-2024 16:34:59 Setting target compatibility to 11 error 13-Nov-2024 16:35:06 Note: Some input files use or override a deprecated API. error 13-Nov-2024 16:35:06 Note: Recompile with -Xlint:deprecation for details. error 13-Nov-2024 16:35:06 Note: Some input files use unchecked or unsafe operations. error 13-Nov-2024 16:35:06 Note: Recompile with -Xlint:unchecked for details. build 13-Nov-2024 16:35:07 build 13-Nov-2024 16:35:07 > Task :processResources build 13-Nov-2024 16:35:07 Execution optimizations have been disabled for task ':processResources' to ensure correctness due to the following reasons: build 13-Nov-2024 16:35:07 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:07 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:07 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:07 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:07 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:07 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:07 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:07 build 13-Nov-2024 16:35:07 > Task :classes build 13-Nov-2024 16:35:09 build 13-Nov-2024 16:35:09 > Task :compileLinkCheck build 13-Nov-2024 16:35:09 Execution optimizations have been disabled for task ':compileLinkCheck' to ensure correctness due to the following reasons: build 13-Nov-2024 16:35:09 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:09 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:09 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-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 13-Nov-2024 16:35:11 build 13-Nov-2024 16:35:11 > Task :linkCheck build 13-Nov-2024 16:35:11 Checking help file links build 13-Nov-2024 16:37:18 build 13-Nov-2024 16:37:18 Results: build 13-Nov-2024 16:37:18 159 distinct help targets build 13-Nov-2024 16:37:18 159 help mappings build 13-Nov-2024 16:37:18 0 invalid targets build 13-Nov-2024 16:37:18 32 unused targets build 13-Nov-2024 16:37:18 uniprotfetcher: html/features/uniprotsequencefetcher.html build 13-Nov-2024 16:37:18 overviewprefs: html/features/preferences.html#overview build 13-Nov-2024 16:37:18 cdnafeatures: html/features/codingfeatures.html build 13-Nov-2024 16:37:18 startupprefs: html/features/preferences.html#startup build 13-Nov-2024 16:37:18 ensemblfetch: html/features/ensemblsequencefetcher.html build 13-Nov-2024 16:37:18 io.modellerpir: html/io/modellerpir.html build 13-Nov-2024 16:37:18 structureandpaefromfile: html/features/structurechooser.html#loadfromfile build 13-Nov-2024 16:37:18 pdbmcviewer: html/features/pdbviewer.html build 13-Nov-2024 16:37:18 workingwithpae: html/features/paematrices.html build 13-Nov-2024 16:37:18 groovy.colours: html/features/groovy.html#groovyColours build 13-Nov-2024 16:37:18 seqmappings: html/features/seqmappings.html build 13-Nov-2024 16:37:18 uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts build 13-Nov-2024 16:37:18 splitframe.mirrorfonts: html/features/splitView.html#mirror build 13-Nov-2024 16:37:18 subtMatrices.pam250: html/calculations/scorematrices.html#pam250 build 13-Nov-2024 16:37:18 search: html/features/search.html build 13-Nov-2024 16:37:18 viewingpdbs.reps: html/features/viewingpdbs.html#viewreps build 13-Nov-2024 16:37:18 alformats: html/io/fileformats.html build 13-Nov-2024 16:37:18 strucprefs: html/features/preferences.html#structure build 13-Nov-2024 16:37:18 siftsmapping: html/features/siftsmapping.html build 13-Nov-2024 16:37:18 chimera.annotxfer: html/features/chimera.html#annotxfer build 13-Nov-2024 16:37:18 pdbfts: html/features/pdbsequencefetcher.html#pdbfts build 13-Nov-2024 16:37:18 newkeys: html/features/newkeystrokes.html build 13-Nov-2024 16:37:18 importvcf.attribs: html/features/importvcf.html#attribs build 13-Nov-2024 16:37:18 seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature build 13-Nov-2024 16:37:18 structuresvia3dbeacons: html/features/structurechooser.html#3dbeaconssearch build 13-Nov-2024 16:37:18 jalarchive: html/features/jalarchive.html build 13-Nov-2024 16:37:18 newsreader: html/webServices/newsreader.html build 13-Nov-2024 16:37:18 jalviewcltool: html/features/commandline.html#script build 13-Nov-2024 16:37:18 popMenuAddref: html/menus/popupMenu.html#addrefannot build 13-Nov-2024 16:37:18 splitframe.virtualfeats: html/features/splitView.html#virtualfeats build 13-Nov-2024 16:37:18 paematrixformat: html/io/paematrixformat.html build 13-Nov-2024 16:37:18 overview: html/features/overview.html build 13-Nov-2024 16:37:18 0 invalid map urls build 13-Nov-2024 16:37:18 0 invalid image attributes build 13-Nov-2024 16:37:18 506 internal href links (110 with anchors) build 13-Nov-2024 16:37:18 0 invalid internal href links build 13-Nov-2024 16:37:18 0 invalid internal anchor links build 13-Nov-2024 16:37:18 112 external href links build 13-Nov-2024 16:37:18 External links not verified as internet not available build 13-Nov-2024 16:37:18 *** Success *** build 13-Nov-2024 16:37:18 build 13-Nov-2024 16:37:18 > Task :jar build 13-Nov-2024 16:37:19 > Task :syncJars build 13-Nov-2024 16:37:19 > Task :makeDist build 13-Nov-2024 16:37:19 > Task :getdownWebsiteBuild build 13-Nov-2024 16:37:20 build 13-Nov-2024 16:37:20 > Task :getdownDigest build 13-Nov-2024 16:37:20 Generating digest file './build/website/docroot/getdown/default/11/digest.txt'... error 13-Nov-2024 16:37:20 2024/11/13 16:37:19:593 WARNING Starting without install4j classes error 13-Nov-2024 16:37:20 2024/11/13 16:37:20:125 WARNING Starting without install4j classes build 13-Nov-2024 16:37:20 Generating digest file './build/website/docroot/getdown/default/11/digest2.txt'... build 13-Nov-2024 16:37:20 build 13-Nov-2024 16:37:20 > Task :getdown build 13-Nov-2024 16:37:20 build 13-Nov-2024 16:37:20 Deprecated Gradle features were used in this build, making it incompatible with Gradle 8.0. build 13-Nov-2024 16:37:20 build 13-Nov-2024 16:37:20 You can use '--warning-mode all' to show the individual deprecation warnings and determine if they come from your own scripts or plugins. build 13-Nov-2024 16:37:20 build 13-Nov-2024 16:37:20 See https://docs.gradle.org/7.4.2/userguide/command_line_interface.html#sec:command_line_warnings build 13-Nov-2024 16:37:20 build 13-Nov-2024 16:37:20 Execution optimizations have been disabled for 4 invalid unit(s) of work during this build to ensure correctness. build 13-Nov-2024 16:37:20 Please consult deprecation warnings for more details. build 13-Nov-2024 16:37:20 build 13-Nov-2024 16:37:20 BUILD SUCCESSFUL in 2m 27s build 13-Nov-2024 16:37:20 21 actionable tasks: 20 executed, 1 up-to-date simple 13-Nov-2024 16:37:21 Finished task 'Jalview Develop Launcher JVL (Java 11)' with result: Success simple 13-Nov-2024 16:37:21 Starting task 'Copy JVL file and produce link in HTML' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' command 13-Nov-2024 16:37:21 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Launchers - patch-JAL-4077_jmolsaveloadwindows - Default Job #1 (JB-GDL43-JOB1-1)'\n ... running command line: \n/srv/bamboo/bamboo-home/temp/JB-GDL43-JOB1-1-ScriptBuildTask-195100865268660003.sh\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=patch/JAL-4077_jmolsaveloadwindows\nbamboo_dependency_parent_0=JB-GDB645-1\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nbamboo_dependency_parent_total=1\nbamboo_planRepository_1_branchDisplayName=patch/JAL-4077_jmolsaveloadwindows\nbamboo_repository_revision_number=278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDL43-JOB1-1\nbamboo_repository_46498204_git_username=\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL43-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDL43-JOB1\nbamboo_shortPlanName=patch-JAL-4077_jmolsaveloadwindows\nbamboo_planRepository_name=Jalview Git\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-GDL43-JOB1-1\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Launchers - patch-JAL-4077_jmolsaveloadwindows\nbamboo_shortPlanKey=GDL43\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7\nbamboo_buildTimeStamp=2024-11-13T16:20:50.595Z\nbamboo_repository_git_branch=patch/JAL-4077_jmolsaveloadwindows\nbamboo_buildResultKey=JB-GDL43-JOB1-1\nbamboo_repository_branch_name=patch/JAL-4077_jmolsaveloadwindows\nbamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Launchers - patch-JAL-4077_jmolsaveloadwindows - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_repository_46498204_branch_name=patch/JAL-4077_jmolsaveloadwindows\nbamboo_planRepository_1_revision=278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7\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-GDL43 -Pbamboo_buildResultsUrl=${bamboo_buildResultsUrl} -Pbamboo_buildResultKey=${bamboo_buildResultKey} clean getdown\nbamboo_repository_46498204_name=Jalview Git\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=patch/JAL-4077_jmolsaveloadwindows\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_46498204_git_branch=patch/JAL-4077_jmolsaveloadwindows\nbamboo_repository_git_username=\nbamboo_planRepository_branchDisplayName=patch/JAL-4077_jmolsaveloadwindows\nbamboo_repository_46498204_revision_number=278d4b2921b6cb58c3a6c15de0c0a4ed3c66b3f7\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=patch/JAL-4077_jmolsaveloadwindows\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46302007\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_46498204_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\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-GDL43-JOB1\nbamboo_planKey=JB-GDL43\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_planRepository_1_branchName=patch/JAL-4077_jmolsaveloadwindows\n simple 13-Nov-2024 16:37:21 Finished task 'Copy JVL file and produce link in HTML' with result: Success simple 13-Nov-2024 16:37:21 Running post build plugin 'NCover Results Collector' simple 13-Nov-2024 16:37:21 Running post build plugin 'Artifact Copier' simple 13-Nov-2024 16:37:21 Publishing an artifact: getdown simple 13-Nov-2024 16:37:21 Finished publishing of artifact Shared artifact: [getdown], pattern: [**/*] anchored at: [build/website/docroot/getdown/default/11] in 97.67 ms simple 13-Nov-2024 16:37:21 Running post build plugin 'Artifactory Release Management Staging' simple 13-Nov-2024 16:37:21 Running post build plugin 'Artifactory Build Info Copier' simple 13-Nov-2024 16:37:21 Running post build plugin 'Artifactory Gradle Properties Info Copier' simple 13-Nov-2024 16:37:21 Running post build plugin 'npm Cache Cleanup' simple 13-Nov-2024 16:37:21 Running post build plugin 'Clover Results Collector' simple 13-Nov-2024 16:37:21 Running post build plugin 'Docker Container Cleanup' simple 13-Nov-2024 16:37:21 Finalising the build... simple 13-Nov-2024 16:37:21 Stopping timer. simple 13-Nov-2024 16:37:21 Build JB-GDL43-JOB1-1 completed. simple 13-Nov-2024 16:37:21 Running on server: post build plugin 'NCover Results Collector' simple 13-Nov-2024 16:37:21 Running on server: post build plugin 'Build Hanging Detection Configuration' simple 13-Nov-2024 16:37:21 Running on server: post build plugin 'Clover Delta Calculator' simple 13-Nov-2024 16:37:21 Running on server: post build plugin 'Maven Dependencies Postprocessor' simple 13-Nov-2024 16:37:21 All post build plugins have finished simple 13-Nov-2024 16:37:21 Generating build results summary... simple 13-Nov-2024 16:37:21 Saving build results to disk... simple 13-Nov-2024 16:37:21 Logging substituted variables... simple 13-Nov-2024 16:37:21 Indexing build results... simple 13-Nov-2024 16:37:21 Finished building JB-GDL43-JOB1-1.