simple 14-Mar-2024 12:06:37 Build Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job #3 (JB-GDC330-JOB1-3) started building on agent Default Agent simple 14-Mar-2024 12:06:37 simple 14-Mar-2024 12:06:37 Build working directory is /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 simple 14-Mar-2024 12:06:37 Executing build Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job #3 (JB-GDC330-JOB1-3) simple 14-Mar-2024 12:06:37 Starting task 'Checkout Default Repository' of type 'com.atlassian.bamboo.plugins.vcs:task.vcs.checkout' simple 14-Mar-2024 12:06:37 Checking out into /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 simple 14-Mar-2024 12:06:37 Updating source code to revision: ce63feae60026b5815c18b133447d0f265d4cf8a simple 14-Mar-2024 12:06:37 Fetching 'refs/heads/development/Release_2_12_Branch' from 'http://source.jalview.org/git/jalview.git'. simple 14-Mar-2024 12:06:37 Checking out revision ce63feae60026b5815c18b133447d0f265d4cf8a. simple 14-Mar-2024 12:06:37 From file:///srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache/2597b807d50ab756c763be1d374b09c84289a164 simple 14-Mar-2024 12:06:37 b8c0c4d..ce63fea development/Release_2_12_Branch -> origin/development/Release_2_12_Branch simple 14-Mar-2024 12:06:37 c94a8b5..44f7d3f JAL-1601-direct-jpred4-rest-service -> origin/JAL-1601-direct-jpred4-rest-service simple 14-Mar-2024 12:06:37 * [new branch] feature/JAL-4386_calculate_tree_using_secondary_structure_annotation -> origin/feature/JAL-4386_calculate_tree_using_secondary_structure_annotation simple 14-Mar-2024 12:06:37 Already on 'development/Release_2_12_Branch' simple 14-Mar-2024 12:06:37 Your branch is behind 'origin/development/Release_2_12_Branch' by 3 commits, and can be fast-forwarded. simple 14-Mar-2024 12:06:37 (use "git pull" to update your local branch) simple 14-Mar-2024 12:06:38 HEAD is now at ce63fea Merge branch 'JAL-1601-direct-jpred4-rest-service' into development/Release_2_12_Branch simple 14-Mar-2024 12:06:38 Updated source code to revision: ce63feae60026b5815c18b133447d0f265d4cf8a simple 14-Mar-2024 12:06:38 Finished task 'Checkout Default Repository' with result: Success simple 14-Mar-2024 12:06:38 Running pre-build action: VCS Version Collector simple 14-Mar-2024 12:06:38 Running pre-build action: Artifactory Release Staging command 14-Mar-2024 12:06:38 Substituting variable: ${bamboo.CHANNEL} with DEVELOP-2-12 command 14-Mar-2024 12:06:38 Substituting variable: ${bamboo.planKey} with JB-GDC330 simple 14-Mar-2024 12:06:38 Starting task 'Jalview ${bamboo.CHANNEL} distribution for Java 11' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' simple 14-Mar-2024 12:06:38 Bamboo Artifactory Plugin version: 2.6.2 command 14-Mar-2024 12:06:38 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job #3 (JB-GDC330-JOB1-3)'\n ... running command line: \n/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=DEVELOP-2-12 -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GDC330 clean getdown shadowJar\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=development/Release_2_12_Branch\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nCATALINA_PID=/home/bamboo/latest/work/bamboo.pid\nbamboo_planRepository_1_branchDisplayName=development/Release_2_12_Branch\nbamboo_repository_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_repository_46497802_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDC330-JOB1-3\nJAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048\nbamboo_repository_46497802_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDC330-JOB1\nbamboo_shortPlanName=development-Release_2_12_Branch\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497802_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nLOGNAME=bamboo\nbamboo_buildNumber=3\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-GDC330-JOB1-3\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nSHELL=/bin/bash\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch\nbamboo_shortPlanKey=GDC330\nbamboo_shortJobKey=JOB1\nbamboo_repository_46497802_git_username=\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_buildTimeStamp=2024-03-14T12:02:52.882Z\nbamboo_repository_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_planRepository_previousRevision=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_repository_git_branch=development/Release_2_12_Branch\nbamboo_buildResultKey=JB-GDC330-JOB1-3\nbamboo_repository_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_name=Jalview Git\nbamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=ce63feae60026b5815c18b133447d0f265d4cf8a\nSHLVL=1\nbamboo_CHANNEL=DEVELOP-2-12\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=development/Release_2_12_Branch\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_planRepository_branchDisplayName=development/Release_2_12_Branch\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=development/Release_2_12_Branch\n_=/usr/bin/java\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_repository_46497802_git_branch=development/Release_2_12_Branch\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301203\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_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-GDC330-JOB1\nbamboo_planKey=JB-GDC330\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nHOME=/home/bamboo\nbamboo_planRepository_1_branchName=development/Release_2_12_Branch\nPATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin\n build 14-Mar-2024 12:06:40 build 14-Mar-2024 12:06:40 > Configure project : build 14-Mar-2024 12:06:40 Using properties from file './utils/channels/develop-SUFFIX/channel_gradle.properties' build 14-Mar-2024 12:06:40 JALVIEW_VERSION is set to '2.12.0' build 14-Mar-2024 12:06:40 HEADLESS BUILD build 14-Mar-2024 12:06:40 J2S ENABLED build 14-Mar-2024 12:06:40 Using a DEVELOP-2-12 profile. build 14-Mar-2024 12:06:40 eclipseDir exists build 14-Mar-2024 12:06:41 build 14-Mar-2024 12:06:41 > Task :clean build 14-Mar-2024 12:06:41 > Task :cleanPackageDir build 14-Mar-2024 12:06:41 > Task :getdownImagesCopy build 14-Mar-2024 12:06:43 > Task :getdownImagesProcess build 14-Mar-2024 12:06:43 > Task :getdownImages build 14-Mar-2024 12:06:43 > Task :copyHelp build 14-Mar-2024 12:06:44 > Task :buildIndices build 14-Mar-2024 12:06:44 > Task :copyResources build 14-Mar-2024 12:06:44 > Task :copyChannelResources build 14-Mar-2024 12:06:44 build 14-Mar-2024 12:06:44 > Task :createBuildProperties build 14-Mar-2024 12:06:44 Execution optimizations have been disabled for task ':createBuildProperties' to ensure correctness due to the following reasons: build 14-Mar-2024 12:06:44 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:44 build 14-Mar-2024 12:06:44 > Task :buildResources build 14-Mar-2024 12:06:44 > Task :copyDocs build 14-Mar-2024 12:06:44 build 14-Mar-2024 12:06:44 > Task :convertMdFiles build 14-Mar-2024 12:06:44 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/doc_build/doc/README-DMG_creation.html build 14-Mar-2024 12:06:44 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/doc_build/doc/releaseprocess.html build 14-Mar-2024 12:06:44 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/doc_build/doc/README-DMG_background_image_creation.html build 14-Mar-2024 12:06:44 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/doc_build/doc/JalviewJS-API.html build 14-Mar-2024 12:06:44 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/doc_build/doc/building.html build 14-Mar-2024 12:06:44 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/doc_build/doc/addingWebClient.html build 14-Mar-2024 12:06:44 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/doc_build/doc/JalviewJS-startupParams.html build 14-Mar-2024 12:06:44 build 14-Mar-2024 12:06:44 > Task :releasesTemplates build 14-Mar-2024 12:06:44 Execution optimizations have been disabled for task ':releasesTemplates' to ensure correctness due to the following reasons: build 14-Mar-2024 12:06:44 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:44 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:44 build 14-Mar-2024 12:06:44 > Task :prepare build 14-Mar-2024 12:06:46 build 14-Mar-2024 12:06:46 > Task :compileJava build 14-Mar-2024 12:06:46 Setting target compatibility to 11 error 14-Mar-2024 12:06:53 Note: Some input files use or override a deprecated API. error 14-Mar-2024 12:06:53 Note: Recompile with -Xlint:deprecation for details. error 14-Mar-2024 12:06:53 Note: Some input files use unchecked or unsafe operations. error 14-Mar-2024 12:06:53 Note: Recompile with -Xlint:unchecked for details. build 14-Mar-2024 12:06:55 build 14-Mar-2024 12:06:55 > Task :processResources build 14-Mar-2024 12:06:55 Execution optimizations have been disabled for task ':processResources' to ensure correctness due to the following reasons: build 14-Mar-2024 12:06:55 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/doc_build'. Reason: Task ':processResources' uses this output of task ':convertMdFiles' 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 14-Mar-2024 12:06:55 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:55 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:55 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:55 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:55 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:55 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:55 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:55 build 14-Mar-2024 12:06:55 > Task :classes build 14-Mar-2024 12:06:57 build 14-Mar-2024 12:06:57 > Task :compileLinkCheck build 14-Mar-2024 12:06:57 Execution optimizations have been disabled for task ':compileLinkCheck' to ensure correctness due to the following reasons: build 14-Mar-2024 12:06:57 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:57 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:57 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:06:58 build 14-Mar-2024 12:06:58 > Task :linkCheck build 14-Mar-2024 12:06:58 Checking help file links build 14-Mar-2024 12:06:58 build 14-Mar-2024 12:06:58 Results: build 14-Mar-2024 12:06:58 148 distinct help targets build 14-Mar-2024 12:06:58 148 help mappings build 14-Mar-2024 12:06:58 0 invalid targets build 14-Mar-2024 12:06:58 26 unused targets build 14-Mar-2024 12:06:58 uniprotfetcher: html/features/uniprotsequencefetcher.html build 14-Mar-2024 12:06:58 overviewprefs: html/features/preferences.html#overview build 14-Mar-2024 12:06:58 cdnafeatures: html/features/codingfeatures.html build 14-Mar-2024 12:06:58 ensemblfetch: html/features/ensemblsequencefetcher.html build 14-Mar-2024 12:06:58 io.modellerpir: html/io/modellerpir.html build 14-Mar-2024 12:06:58 pdbmcviewer: html/features/pdbviewer.html build 14-Mar-2024 12:06:58 groovy.colours: html/features/groovy.html#groovyColours build 14-Mar-2024 12:06:58 seqmappings: html/features/seqmappings.html build 14-Mar-2024 12:06:58 uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts build 14-Mar-2024 12:06:58 splitframe.mirrorfonts: html/features/splitView.html#mirror build 14-Mar-2024 12:06:58 subtMatrices.pam250: html/calculations/scorematrices.html#pam250 build 14-Mar-2024 12:06:58 search: html/features/search.html build 14-Mar-2024 12:06:58 viewingpdbs.reps: html/features/viewingpdbs.html#viewreps build 14-Mar-2024 12:06:58 alformats: html/io/fileformats.html build 14-Mar-2024 12:06:58 strucprefs: html/features/preferences.html#structure build 14-Mar-2024 12:06:58 siftsmapping: html/features/siftsmapping.html build 14-Mar-2024 12:06:58 chimera.annotxfer: html/features/chimera.html#annotxfer build 14-Mar-2024 12:06:58 pdbfts: html/features/pdbsequencefetcher.html#pdbfts build 14-Mar-2024 12:06:58 newkeys: html/features/newkeystrokes.html build 14-Mar-2024 12:06:58 importvcf.attribs: html/features/importvcf.html#attribs build 14-Mar-2024 12:06:58 seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature build 14-Mar-2024 12:06:58 jalarchive: html/features/jalarchive.html build 14-Mar-2024 12:06:58 newsreader: html/webServices/newsreader.html build 14-Mar-2024 12:06:58 popMenuAddref: html/menus/popupMenu.html#addrefannot build 14-Mar-2024 12:06:58 splitframe.virtualfeats: html/features/splitView.html#virtualfeats build 14-Mar-2024 12:06:58 overview: html/features/overview.html build 14-Mar-2024 12:06:58 0 invalid map urls build 14-Mar-2024 12:06:58 0 invalid image attributes build 14-Mar-2024 12:06:58 406 internal href links (81 with anchors) build 14-Mar-2024 12:06:58 0 invalid internal href links build 14-Mar-2024 12:06:58 0 invalid internal anchor links build 14-Mar-2024 12:06:58 106 external href links build 14-Mar-2024 12:06:58 External links not verified as internet not available build 14-Mar-2024 12:06:58 *** Success *** build 14-Mar-2024 12:06:59 build 14-Mar-2024 12:06:59 > Task :jar build 14-Mar-2024 12:06:59 > Task :syncJars build 14-Mar-2024 12:06:59 > Task :makeDist build 14-Mar-2024 12:06:59 > Task :getdownWebsite build 14-Mar-2024 12:07:00 build 14-Mar-2024 12:07:00 > Task :getdownDigest build 14-Mar-2024 12:07:00 Generating digest file './build/website/docroot/getdown/develop-2-12/11/digest.txt'... build 14-Mar-2024 12:07:00 Generating digest file './build/website/docroot/getdown/develop-2-12/11/digest2.txt'... build 14-Mar-2024 12:07:00 build 14-Mar-2024 12:07:00 > Task :getdown build 14-Mar-2024 12:07:00 LIKELY RSYNC COMMAND: build 14-Mar-2024 12:07:00 mkdir -p '/Volumes/jalview/docroot/getdown/develop-2-12/11/' build 14-Mar-2024 12:07:00 rsync -avh --delete './build/website/docroot/getdown/develop-2-12/11/' '/Volumes/jalview/docroot/getdown/develop-2-12/11/' error 14-Mar-2024 12:07:00 2024/03/14 12:06:59:740 WARNING Starting without install4j classes error 14-Mar-2024 12:07:00 2024/03/14 12:07:00:290 WARNING Starting without install4j classes build 14-Mar-2024 12:07:08 build 14-Mar-2024 12:07:08 > Task :shadowJar build 14-Mar-2024 12:07:08 build 14-Mar-2024 12:07:08 Deprecated Gradle features were used in this build, making it incompatible with Gradle 8.0. build 14-Mar-2024 12:07:08 build 14-Mar-2024 12:07:08 You can use '--warning-mode all' to show the individual deprecation warnings and determine if they come from your own scripts or plugins. build 14-Mar-2024 12:07:08 build 14-Mar-2024 12:07:08 See https://docs.gradle.org/7.4.2/userguide/command_line_interface.html#sec:command_line_warnings build 14-Mar-2024 12:07:08 build 14-Mar-2024 12:07:08 Execution optimizations have been disabled for 4 invalid unit(s) of work during this build to ensure correctness. build 14-Mar-2024 12:07:08 Please consult deprecation warnings for more details. build 14-Mar-2024 12:07:08 build 14-Mar-2024 12:07:08 BUILD SUCCESSFUL in 30s build 14-Mar-2024 12:07:08 22 actionable tasks: 22 executed simple 14-Mar-2024 12:07:08 Finished task 'Jalview ${bamboo.CHANNEL} distribution for Java 11' with result: Success command 14-Mar-2024 12:07:08 Substituting variable: ${bamboo.CHANNEL} with DEVELOP-2-12 command 14-Mar-2024 12:07:08 Substituting variable: ${bamboo.planKey} with JB-GDC330 simple 14-Mar-2024 12:07:08 Starting task 'JalviewJS ${bamboo.CHANNEL} release' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' simple 14-Mar-2024 12:07:08 Bamboo Artifactory Plugin version: 2.6.2 command 14-Mar-2024 12:07:08 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job #3 (JB-GDC330-JOB1-3)'\n ... running command line: \n/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=DEVELOP-2-12 -PJAVA_VERSION=11 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GDC330 --info eclipse jalviewjsCreateJ2sSettings jalviewjs\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=development/Release_2_12_Branch\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nCATALINA_PID=/home/bamboo/latest/work/bamboo.pid\nbamboo_planRepository_1_branchDisplayName=development/Release_2_12_Branch\nbamboo_repository_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_repository_46497802_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDC330-JOB1-3\nJAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048\nbamboo_repository_46497802_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDC330-JOB1\nbamboo_shortPlanName=development-Release_2_12_Branch\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497802_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nLOGNAME=bamboo\nbamboo_buildNumber=3\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-GDC330-JOB1-3\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nSHELL=/bin/bash\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch\nbamboo_shortPlanKey=GDC330\nbamboo_shortJobKey=JOB1\nbamboo_repository_46497802_git_username=\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_buildTimeStamp=2024-03-14T12:02:52.882Z\nbamboo_repository_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_planRepository_previousRevision=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_repository_git_branch=development/Release_2_12_Branch\nbamboo_buildResultKey=JB-GDC330-JOB1-3\nbamboo_repository_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_name=Jalview Git\nbamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=ce63feae60026b5815c18b133447d0f265d4cf8a\nSHLVL=1\nbamboo_CHANNEL=DEVELOP-2-12\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=DEVELOP-2-12 -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GDC330 clean getdown shadowJar\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=development/Release_2_12_Branch\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_planRepository_branchDisplayName=development/Release_2_12_Branch\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=development/Release_2_12_Branch\n_=/usr/bin/java\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_repository_46497802_git_branch=development/Release_2_12_Branch\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301203\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_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-GDC330-JOB1\nbamboo_planKey=JB-GDC330\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nHOME=/home/bamboo\nbamboo_planRepository_1_branchName=development/Release_2_12_Branch\nPATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin\n build 14-Mar-2024 12:07:09 Initialized native services in: /srv/bamboo/home/bamboo/.gradle/native build 14-Mar-2024 12:07:09 Initialized jansi services in: /srv/bamboo/home/bamboo/.gradle/native build 14-Mar-2024 12:07:09 The client will now receive all logging from the daemon (pid: 714). The daemon log file: /srv/bamboo/home/bamboo/.gradle/daemon/7.4.2/daemon-714.out.log build 14-Mar-2024 12:07:09 Starting 3rd build in daemon [uptime: 5 mins 37.625 secs, performance: 99%, non-heap usage: 34% of 256 MiB] build 14-Mar-2024 12:07:09 Using 4 worker leases. build 14-Mar-2024 12:07:09 Watching the file system is configured to be enabled if available build 14-Mar-2024 12:07:09 File system watching is inactive build 14-Mar-2024 12:07:09 Starting Build build 14-Mar-2024 12:07:09 Settings evaluated using settings file '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/settings.gradle'. build 14-Mar-2024 12:07:09 Projects loaded. Root project using build file '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build.gradle'. build 14-Mar-2024 12:07:09 Included projects: [root project 'jalview'] build 14-Mar-2024 12:07:09 build 14-Mar-2024 12:07:09 > Configure project : build 14-Mar-2024 12:07:09 Evaluating root project 'jalview' using build file '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build.gradle'. build 14-Mar-2024 12:07:09 Using properties from file './utils/channels/develop-SUFFIX/channel_gradle.properties' build 14-Mar-2024 12:07:09 JALVIEW_VERSION is set to '2.12.0' build 14-Mar-2024 12:07:09 HEADLESS BUILD build 14-Mar-2024 12:07:09 J2S ENABLED build 14-Mar-2024 12:07:09 Using a DEVELOP-2-12 profile. build 14-Mar-2024 12:07:09 file or directory '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/main/java', not found build 14-Mar-2024 12:07:09 eclipseDir exists build 14-Mar-2024 12:07:09 All projects evaluated. build 14-Mar-2024 12:07:09 Selected primary task 'eclipse' from project : build 14-Mar-2024 12:07:09 Selected primary task 'jalviewjsCreateJ2sSettings' from project : build 14-Mar-2024 12:07:09 Selected primary task 'jalviewjs' from project : build 14-Mar-2024 12:07:09 Tasks to be executed: [task ':eclipseClasspath', task ':eclipseJdt', task ':eclipseProject', task ':eclipse', task ':jalviewjsCreateJ2sSettings', task ':jalviewjsEclipsePaths', task ':jalviewjsEclipseCopyDropins', task ':jalviewjsSetEclipseWorkspace', task ':jalviewjsEclipseSetup', task ':jalviewjsEnableAltFileProperty', task ':eclipseSetup', task ':jalviewjsProjectImport', task ':jalviewjsTranspile', task ':jalviewjsCopyTransferSiteJs', task ':jalviewjsTransferUnzipLib', task ':jalviewjsTransferUnzipSwingJs', task ':jalviewjsTransferUnzipAllLibs', task ':jalviewjsSyncAllLibs', task ':copyResources', task ':createBuildProperties', task ':jalviewjsSyncBuildProperties', task ':jalviewjsBuildAllCores', task ':jalviewjsPublishCoreTemplates', task ':jalviewjsSyncCore', task ':copyChannelResources', task ':buildResources', task ':jalviewjsSyncResources', task ':jalviewjsSyncSiteResources', task ':jalviewjsPrepareSite', task ':jalviewjsBuildSite', task ':jalviewjs'] build 14-Mar-2024 12:07:09 Tasks that were excluded: [] build 14-Mar-2024 12:07:09 :eclipseClasspath (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :eclipseClasspath build 14-Mar-2024 12:07:10 Caching disabled for task ':eclipseClasspath' because: build 14-Mar-2024 12:07:10 Build cache is disabled build 14-Mar-2024 12:07:10 Task ':eclipseClasspath' is not up-to-date because: build 14-Mar-2024 12:07:10 Task.upToDateWhen is false. build 14-Mar-2024 12:07:10 :eclipseClasspath (Thread[Execution worker for ':',5,main]) completed. Took 0.35 secs. build 14-Mar-2024 12:07:10 :eclipseJdt (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :eclipseJdt build 14-Mar-2024 12:07:10 Caching disabled for task ':eclipseJdt' because: build 14-Mar-2024 12:07:10 Build cache is disabled build 14-Mar-2024 12:07:10 Task ':eclipseJdt' is not up-to-date because: build 14-Mar-2024 12:07:10 Task.upToDateWhen is false. build 14-Mar-2024 12:07:10 :eclipseJdt (Thread[Execution worker for ':',5,main]) completed. Took 0.036 secs. build 14-Mar-2024 12:07:10 :eclipseProject (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :eclipseProject build 14-Mar-2024 12:07:10 Caching disabled for task ':eclipseProject' because: build 14-Mar-2024 12:07:10 Build cache is disabled build 14-Mar-2024 12:07:10 Task ':eclipseProject' is not up-to-date because: build 14-Mar-2024 12:07:10 Task.upToDateWhen is false. build 14-Mar-2024 12:07:10 :eclipseProject (Thread[Execution worker for ':',5,main]) completed. Took 0.007 secs. build 14-Mar-2024 12:07:10 :eclipse (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :eclipse build 14-Mar-2024 12:07:10 Skipping task ':eclipse' as it has no actions. build 14-Mar-2024 12:07:10 :eclipse (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:07:10 :jalviewjsCreateJ2sSettings (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :jalviewjsCreateJ2sSettings build 14-Mar-2024 12:07:10 Caching disabled for task ':jalviewjsCreateJ2sSettings' because: build 14-Mar-2024 12:07:10 Build cache is disabled build 14-Mar-2024 12:07:10 Task ':jalviewjsCreateJ2sSettings' is not up-to-date because: build 14-Mar-2024 12:07:10 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/config/j2s has been removed. build 14-Mar-2024 12:07:10 Output property 'outputFile' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/config/j2s has been removed. build 14-Mar-2024 12:07:10 :jalviewjsCreateJ2sSettings (Thread[Execution worker for ':',5,main]) completed. Took 0.002 secs. build 14-Mar-2024 12:07:10 :jalviewjsEclipsePaths (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :jalviewjsEclipsePaths build 14-Mar-2024 12:07:10 Caching disabled for task ':jalviewjsEclipsePaths' because: build 14-Mar-2024 12:07:10 Build cache is disabled build 14-Mar-2024 12:07:10 Task ':jalviewjsEclipsePaths' is not up-to-date because: build 14-Mar-2024 12:07:10 Task has not declared any outputs despite executing actions. build 14-Mar-2024 12:07:10 Running task jalviewjsEclipsePaths as IN_ECLIPSE=false build 14-Mar-2024 12:07:10 ECLIPSE VERSION=4.28.0 build 14-Mar-2024 12:07:10 :jalviewjsEclipsePaths (Thread[Execution worker for ':',5,main]) completed. Took 0.001 secs. build 14-Mar-2024 12:07:10 :jalviewjsEclipseCopyDropins (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :jalviewjsEclipseCopyDropins build 14-Mar-2024 12:07:10 Caching disabled for task ':jalviewjsEclipseCopyDropins' because: build 14-Mar-2024 12:07:10 Build cache is disabled build 14-Mar-2024 12:07:10 Task ':jalviewjsEclipseCopyDropins' is not up-to-date because: build 14-Mar-2024 12:07:10 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/eclipse_dropins has been removed. build 14-Mar-2024 12:07:10 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/eclipse_dropins/com.seeq.eclipse.importprojects.jar has been removed. build 14-Mar-2024 12:07:10 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/eclipse_dropins/net.sf.j2s.core-j11.jar has been removed. build 14-Mar-2024 12:07:10 :jalviewjsEclipseCopyDropins (Thread[Execution worker for ':',5,main]) completed. Took 0.004 secs. build 14-Mar-2024 12:07:10 :jalviewjsSetEclipseWorkspace (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :jalviewjsSetEclipseWorkspace build 14-Mar-2024 12:07:10 Caching disabled for task ':jalviewjsSetEclipseWorkspace' because: build 14-Mar-2024 12:07:10 Build cache is disabled build 14-Mar-2024 12:07:10 Task ':jalviewjsSetEclipseWorkspace' is not up-to-date because: build 14-Mar-2024 12:07:10 Task.upToDateWhen is false. build 14-Mar-2024 12:07:10 Running task jalviewjsSetEclipseWorkspace as IN_ECLIPSE=false build 14-Mar-2024 12:07:10 NEW ECLIPSE WORKSPACE: /tmp/groovy-generated-tmpdir-9888951162366085118 build 14-Mar-2024 12:07:10 :jalviewjsSetEclipseWorkspace (Thread[Execution worker for ':',5,main]) completed. Took 0.007 secs. build 14-Mar-2024 12:07:10 :jalviewjsEclipseSetup (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :jalviewjsEclipseSetup build 14-Mar-2024 12:07:10 Skipping task ':jalviewjsEclipseSetup' as it has no actions. build 14-Mar-2024 12:07:10 :jalviewjsEclipseSetup (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:07:10 :jalviewjsEnableAltFileProperty (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :jalviewjsEnableAltFileProperty UP-TO-DATE build 14-Mar-2024 12:07:10 Caching disabled for task ':jalviewjsEnableAltFileProperty' because: build 14-Mar-2024 12:07:10 Build cache is disabled build 14-Mar-2024 12:07:10 Skipping task ':jalviewjsEnableAltFileProperty' as it is up-to-date. build 14-Mar-2024 12:07:10 :jalviewjsEnableAltFileProperty (Thread[Execution worker for ':',5,main]) completed. Took 0.003 secs. build 14-Mar-2024 12:07:10 :eclipseSetup (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:10 build 14-Mar-2024 12:07:10 > Task :eclipseSetup build 14-Mar-2024 12:07:10 Skipping task ':eclipseSetup' as it has no actions. build 14-Mar-2024 12:07:10 :eclipseSetup (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:07:10 :jalviewjsProjectImport (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:07:12 build 14-Mar-2024 12:07:12 > Task :jalviewjsProjectImport build 14-Mar-2024 12:07:12 Caching disabled for task ':jalviewjsProjectImport' because: build 14-Mar-2024 12:07:12 Build cache is disabled build 14-Mar-2024 12:07:12 Task ':jalviewjsProjectImport' is not up-to-date because: build 14-Mar-2024 12:07:12 Task.upToDateWhen is false. build 14-Mar-2024 12:07:12 Running task jalviewjsProjectImport as IN_ECLIPSE=false build 14-Mar-2024 12:07:12 Starting process 'command '/home/bamboo/buildtools/eclipse/latest/eclipse/eclipse''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 Command: /home/bamboo/buildtools/eclipse/latest/eclipse/eclipse -nosplash --launcher.suppressErrors -application com.seeq.eclipse.importprojects.headlessimport -data /tmp/groovy-generated-tmpdir-9888951162366085118 -import /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 --launcher.appendVmargs -vmargs -Dorg.eclipse.equinox.p2.reconciler.dropins.directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/eclipse_dropins -Dnet.sf.j2s.core.headlessbuild=true -Dorg.jalview.jalviewjsj2sfilename=./build/jalviewjs/config/j2s build 14-Mar-2024 12:07:12 Successfully started process 'command '/home/bamboo/buildtools/eclipse/latest/eclipse/eclipse'' error 14-Mar-2024 12:07:14 SLF4J: No SLF4J providers were found. error 14-Mar-2024 12:07:14 SLF4J: Defaulting to no-operation (NOP) logger implementation error 14-Mar-2024 12:07:14 SLF4J: See https://www.slf4j.org/codes.html#noProviders for further details. error 14-Mar-2024 12:07:30 Job found still running after platform shutdown. Jobs should be canceled by the plugin that scheduled them during shutdown: org.eclipse.buildship.core.internal.workspace.SynchronizationJob build 14-Mar-2024 12:07:30 :jalviewjsProjectImport (Thread[Execution worker for ':',5,main]) completed. Took 20.264 secs. build 14-Mar-2024 12:07:30 :jalviewjsTranspile (Thread[Execution worker for ':',5,main]) started. error 14-Mar-2024 12:07:32 SLF4J: No SLF4J providers were found. error 14-Mar-2024 12:07:32 SLF4J: Defaulting to no-operation (NOP) logger implementation error 14-Mar-2024 12:07:32 SLF4J: See https://www.slf4j.org/codes.html#noProviders for further details. build 14-Mar-2024 12:07:32 build 14-Mar-2024 12:07:32 > Task :jalviewjsTranspile build 14-Mar-2024 12:07:32 Caching disabled for task ':jalviewjsTranspile' because: build 14-Mar-2024 12:07:32 Build cache is disabled build 14-Mar-2024 12:07:32 Task ':jalviewjsTranspile' is not up-to-date because: build 14-Mar-2024 12:07:32 Task.upToDateWhen is false. build 14-Mar-2024 12:07:32 Running task jalviewjsTranspile as IN_ECLIPSE=false build 14-Mar-2024 12:07:32 Starting process 'command '/home/bamboo/buildtools/eclipse/latest/eclipse/eclipse''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 Command: /home/bamboo/buildtools/eclipse/latest/eclipse/eclipse -nosplash --launcher.suppressErrors -application org.eclipse.jdt.apt.core.aptBuild -data /tmp/groovy-generated-tmpdir-9888951162366085118 -cleanBuild jalview --launcher.appendVmargs -vmargs -Dorg.eclipse.equinox.p2.reconciler.dropins.directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/eclipse_dropins -Dnet.sf.j2s.core.headlessbuild=true -Dorg.jalview.jalviewjsj2sfilename=./build/jalviewjs/config/j2s build 14-Mar-2024 12:07:32 Successfully started process 'command '/home/bamboo/buildtools/eclipse/latest/eclipse/eclipse'' build 14-Mar-2024 12:07:33 Invoking 'Java Builder' on '/jalview'. build 14-Mar-2024 12:07:34 net.sf.j2s.core.3.3.1/3.3.1-v1 started build 14-Mar-2024 12:07:34 J2S CompilationParticipant started build 14-Mar-2024 12:07:34 J2S isActive true /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 build 14-Mar-2024 12:07:34 J2S aboutToBuild jalview /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 build 14-Mar-2024 12:07:34 J2S cleanStarting /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 build 14-Mar-2024 12:07:34 Cleaning output folder for jalview build 14-Mar-2024 12:07:35 Build done build 14-Mar-2024 12:07:35 Invoking 'Gradle Project Builder' on '/jalview'. build 14-Mar-2024 12:07:35 Invoking 'Java Builder' on '/jalview'. build 14-Mar-2024 12:07:35 J2S aboutToBuild jalview /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 build 14-Mar-2024 12:07:35 Preparing to build jalview build 14-Mar-2024 12:07:35 Cleaning output folder for jalview build 14-Mar-2024 12:07:35 J2S cleanStarting /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 build 14-Mar-2024 12:07:35 Copying resources to the output folder build 14-Mar-2024 12:07:35 Analyzing sources build 14-Mar-2024 12:07:35 J2S buildStarting 1185 files, contexts.size() = 1, isBatch=true build 14-Mar-2024 12:07:35 Compiling jalview/src/com/github/reinert/jjschema build 14-Mar-2024 12:07:36 Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:36 (Found 1 warning) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:36 (Found 2 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:36 (Found 3 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:36 (Found 4 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:36 (Found 5 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:36 (Found 9 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 12 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 13 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 14 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 15 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 37 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 38 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 46 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 47 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 48 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 49 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 50 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 51 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 52 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 59 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 63 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 67 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 69 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 89 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 90 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 91 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 98 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 108 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 113 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 114 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 115 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 119 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 120 warnings) Compiling jalview/src/com/stevesoft/pat build 14-Mar-2024 12:07:37 (Found 120 warnings) Compiling jalview/src/com/stevesoft/pat/wrap build 14-Mar-2024 12:07:37 (Found 120 warnings) Compiling jalview/src/ext/edu/ucsf/rbvi/strucviz2 build 14-Mar-2024 12:07:37 (Found 122 warnings) Compiling jalview/src/ext/edu/ucsf/rbvi/strucviz2 build 14-Mar-2024 12:07:37 (Found 129 warnings) Compiling jalview/src/ext/edu/ucsf/rbvi/strucviz2 build 14-Mar-2024 12:07:37 (Found 132 warnings) Compiling jalview/src/ext/edu/ucsf/rbvi/strucviz2/port build 14-Mar-2024 12:07:37 (Found 132 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 139 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 146 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 184 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 191 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 247 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 279 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 286 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 354 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 357 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 360 warnings) Compiling jalview/src/ext/vamsas build 14-Mar-2024 12:07:37 (Found 360 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:37 (Found 361 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:37 (Found 362 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:37 (Found 363 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:37 (Found 364 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:37 (Found 365 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:37 (Found 366 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:37 (Found 367 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:37 (Found 371 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:38 (Found 375 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:38 (Found 376 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:38 (Found 377 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:38 (Found 378 warnings) Compiling jalview/src/jalview/analysis build 14-Mar-2024 12:07:38 (Found 378 warnings) Compiling jalview/src/jalview/analysis/scoremodels build 14-Mar-2024 12:07:38 (Found 378 warnings) Compiling jalview/src/jalview/api build 14-Mar-2024 12:07:38 (Found 379 warnings) Compiling jalview/src/jalview/api build 14-Mar-2024 12:07:38 (Found 379 warnings) Compiling jalview/src/jalview/api/analysis build 14-Mar-2024 12:07:38 (Found 379 warnings) Compiling jalview/src/jalview/api/structures build 14-Mar-2024 12:07:38 (Found 382 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 441 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 450 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 451 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 456 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 457 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 469 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 480 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 482 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 487 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 488 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 489 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 490 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 493 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 495 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 496 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 498 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 499 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 505 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 506 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 507 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 508 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 512 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 514 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 522 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 532 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 535 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 536 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 537 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 540 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 541 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 545 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 548 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 551 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 560 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 562 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 563 warnings) Compiling jalview/src/jalview/appletgui build 14-Mar-2024 12:07:38 (Found 1 error + 572 warnings) Compiling jalview/src/jalview/appletgui/js build 14-Mar-2024 12:07:38 (Found 1 error + 577 warnings) Compiling jalview/src/jalview/appletgui/js build 14-Mar-2024 12:07:38 (Found 1 error + 577 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:38 (Found 1 error + 587 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:38 (Found 1 error + 588 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:38 (Found 1 error + 589 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:38 (Found 1 error + 599 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:38 (Found 1 error + 601 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:38 (Found 1 error + 603 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:38 (Found 4 errors + 661 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:38 (Found 4 errors + 666 warnings) Compiling jalview/src/jalview/bin build 14-Mar-2024 12:07:39 (Found 4 errors + 666 warnings) Compiling jalview/src/jalview/commands build 14-Mar-2024 12:07:39 (Found 4 errors + 666 warnings) Compiling jalview/src/jalview/controller build 14-Mar-2024 12:07:39 (Found 4 errors + 666 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 679 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 680 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 681 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 684 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 685 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 686 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 692 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 696 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 698 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 699 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 707 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 708 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 711 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 716 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 718 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 719 warnings) Compiling jalview/src/jalview/datamodel build 14-Mar-2024 12:07:39 (Found 4 errors + 719 warnings) Compiling jalview/src/jalview/datamodel/features build 14-Mar-2024 12:07:39 (Found 4 errors + 719 warnings) Compiling jalview/src/jalview/exceptions build 14-Mar-2024 12:07:39 (Found 4 errors + 719 warnings) Compiling jalview/src/jalview/ext/android build 14-Mar-2024 12:07:39 (Found 4 errors + 719 warnings) Compiling jalview/src/jalview/ext/ensembl build 14-Mar-2024 12:07:39 (Found 4 errors + 721 warnings) Compiling jalview/src/jalview/ext/ensembl build 14-Mar-2024 12:07:39 (Found 4 errors + 722 warnings) Compiling jalview/src/jalview/ext/ensembl build 14-Mar-2024 12:07:39 (Found 4 errors + 725 warnings) Compiling jalview/src/jalview/ext/htsjdk build 14-Mar-2024 12:07:39 (Found 4 errors + 726 warnings) Compiling jalview/src/jalview/ext/htsjdk build 14-Mar-2024 12:07:39 (Found 4 errors + 728 warnings) Compiling jalview/src/jalview/ext/jmol build 14-Mar-2024 12:07:39 (Found 4 errors + 729 warnings) Compiling jalview/src/jalview/ext/jmol build 14-Mar-2024 12:07:39 (Found 4 errors + 733 warnings) Compiling jalview/src/jalview/ext/paradise build 14-Mar-2024 12:07:39 (Found 4 errors + 733 warnings) Compiling jalview/src/jalview/ext/pymol build 14-Mar-2024 12:07:39 (Found 4 errors + 735 warnings) Compiling jalview/src/jalview/ext/pymol build 14-Mar-2024 12:07:39 (Found 4 errors + 736 warnings) Compiling jalview/src/jalview/ext/rbvi/chimera build 14-Mar-2024 12:07:39 (Found 4 errors + 737 warnings) Compiling jalview/src/jalview/ext/rbvi/chimera build 14-Mar-2024 12:07:39 (Found 4 errors + 738 warnings) Compiling jalview/src/jalview/ext/rbvi/chimera build 14-Mar-2024 12:07:39 (Found 4 errors + 738 warnings) Compiling jalview/src/jalview/ext/so build 14-Mar-2024 12:07:39 (Found 4 errors + 738 warnings) Compiling jalview/src/jalview/ext/varna build 14-Mar-2024 12:07:39 (Found 4 errors + 738 warnings) Compiling jalview/src/jalview/fts/api build 14-Mar-2024 12:07:39 (Found 4 errors + 739 warnings) Compiling jalview/src/jalview/fts/api build 14-Mar-2024 12:07:39 (Found 4 errors + 740 warnings) Compiling jalview/src/jalview/fts/core build 14-Mar-2024 12:07:39 (Found 4 errors + 743 warnings) Compiling jalview/src/jalview/fts/core build 14-Mar-2024 12:07:39 (Found 4 errors + 744 warnings) Compiling jalview/src/jalview/fts/core build 14-Mar-2024 12:07:39 (Found 4 errors + 745 warnings) Compiling jalview/src/jalview/fts/core build 14-Mar-2024 12:07:39 (Found 4 errors + 747 warnings) Compiling jalview/src/jalview/fts/service/alphafold build 14-Mar-2024 12:07:39 (Found 4 errors + 747 warnings) Compiling jalview/src/jalview/fts/service/pdb build 14-Mar-2024 12:07:39 (Found 4 errors + 755 warnings) Compiling jalview/src/jalview/fts/service/pdb build 14-Mar-2024 12:07:39 (Found 4 errors + 755 warnings) Compiling jalview/src/jalview/fts/service/threedbeacons build 14-Mar-2024 12:07:39 (Found 4 errors + 757 warnings) Compiling jalview/src/jalview/fts/service/threedbeacons build 14-Mar-2024 12:07:39 (Found 4 errors + 761 warnings) Compiling jalview/src/jalview/fts/service/threedbeacons build 14-Mar-2024 12:07:39 (Found 4 errors + 765 warnings) Compiling jalview/src/jalview/fts/service/uniprot build 14-Mar-2024 12:07:39 (Found 4 errors + 765 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:39 (Found 4 errors + 835 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:39 (Found 4 errors + 842 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 843 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 844 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 846 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 848 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 851 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 856 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 857 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 866 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 867 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 897 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 898 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 899 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 900 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 905 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 908 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 909 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 915 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 919 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 925 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 926 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 928 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 929 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 930 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 932 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 933 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 939 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 940 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 941 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 942 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 944 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 945 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 946 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 948 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 949 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 955 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 958 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 960 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 961 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 962 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 964 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 968 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 976 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 985 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 987 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 988 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 990 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 992 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 993 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 996 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 997 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:40 (Found 4 errors + 1005 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1009 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1010 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1011 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1012 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1015 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1016 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1017 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1046 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1049 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1056 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1062 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1076 warnings) Compiling jalview/src/jalview/gui build 14-Mar-2024 12:07:41 (Found 4 errors + 1078 warnings) Compiling jalview/src/jalview/gui/structurechooser build 14-Mar-2024 12:07:41 (Found 4 errors + 1080 warnings) Compiling jalview/src/jalview/gui/structurechooser build 14-Mar-2024 12:07:41 (Found 4 errors + 1085 warnings) Compiling jalview/src/jalview/gui/structurechooser build 14-Mar-2024 12:07:41 (Found 4 errors + 1087 warnings) Compiling jalview/src/jalview/hmmer build 14-Mar-2024 12:07:41 (Found 4 errors + 1090 warnings) Compiling jalview/src/jalview/hmmer build 14-Mar-2024 12:07:41 (Found 4 errors + 1097 warnings) Compiling jalview/src/jalview/hmmer build 14-Mar-2024 12:07:41 (Found 4 errors + 1098 warnings) Compiling jalview/src/jalview/hmmer build 14-Mar-2024 12:07:41 (Found 4 errors + 1100 warnings) Compiling jalview/src/jalview/hmmer build 14-Mar-2024 12:07:41 (Found 4 errors + 1102 warnings) Compiling jalview/src/jalview/hmmer build 14-Mar-2024 12:07:41 (Found 4 errors + 1106 warnings) Compiling jalview/src/jalview/hmmer build 14-Mar-2024 12:07:41 (Found 4 errors + 1106 warnings) Compiling jalview/src/jalview/httpserver build 14-Mar-2024 12:07:41 (Found 4 errors + 1106 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1111 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1113 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1133 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1135 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1137 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1138 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1142 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1144 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1145 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1146 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1147 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1148 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1186 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1188 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1208 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1210 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1211 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1212 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1225 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1285 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1286 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1379 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1384 warnings) Compiling jalview/src/jalview/io build 14-Mar-2024 12:07:41 (Found 4 errors + 1384 warnings) Compiling jalview/src/jalview/io/cache build 14-Mar-2024 12:07:41 (Found 4 errors + 1384 warnings) Compiling jalview/src/jalview/io/gff build 14-Mar-2024 12:07:41 (Found 4 errors + 1385 warnings) Compiling jalview/src/jalview/io/gff build 14-Mar-2024 12:07:41 (Found 4 errors + 1385 warnings) Compiling jalview/src/jalview/io/packed build 14-Mar-2024 12:07:41 (Found 4 errors + 1389 warnings) Compiling jalview/src/jalview/io/packed build 14-Mar-2024 12:07:41 (Found 4 errors + 1391 warnings) Compiling jalview/src/jalview/io/packed build 14-Mar-2024 12:07:41 (Found 4 errors + 1391 warnings) Compiling jalview/src/jalview/io/vamsas build 14-Mar-2024 12:07:41 (Found 4 errors + 1409 warnings) Compiling jalview/src/jalview/io/vamsas build 14-Mar-2024 12:07:41 (Found 4 errors + 1420 warnings) Compiling jalview/src/jalview/io/vamsas build 14-Mar-2024 12:07:41 (Found 4 errors + 1421 warnings) Compiling jalview/src/jalview/io/vamsas build 14-Mar-2024 12:07:41 (Found 4 errors + 1434 warnings) Compiling jalview/src/jalview/io/vamsas build 14-Mar-2024 12:07:41 (Found 4 errors + 1438 warnings) Compiling jalview/src/jalview/io/vamsas build 14-Mar-2024 12:07:41 (Found 4 errors + 1442 warnings) Compiling jalview/src/jalview/io/vamsas build 14-Mar-2024 12:07:41 (Found 4 errors + 1457 warnings) Compiling jalview/src/jalview/io/vamsas build 14-Mar-2024 12:07:41 (Found 4 errors + 1460 warnings) Compiling jalview/src/jalview/io/vcf build 14-Mar-2024 12:07:41 (Found 4 errors + 1461 warnings) Compiling jalview/src/jalview/javascript/json build 14-Mar-2024 12:07:41 (Found 4 errors + 1461 warnings) Compiling jalview/src/jalview/javascript/web build 14-Mar-2024 12:07:41 (Found 4 errors + 1461 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:41 (Found 4 errors + 1462 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1463 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1464 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1465 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1467 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1470 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1471 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1472 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1473 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1476 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1478 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1486 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1487 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1488 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1493 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1494 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1495 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1498 warnings) Compiling jalview/src/jalview/jbgui build 14-Mar-2024 12:07:42 (Found 4 errors + 1498 warnings) Compiling jalview/src/jalview/json/binding/biojs build 14-Mar-2024 12:07:42 (Found 4 errors + 1498 warnings) Compiling jalview/src/jalview/json/binding/biojson/v1 build 14-Mar-2024 12:07:42 (Found 4 errors + 1501 warnings) Compiling jalview/src/jalview/log build 14-Mar-2024 12:07:42 (Found 4 errors + 1503 warnings) Compiling jalview/src/jalview/log build 14-Mar-2024 12:07:42 (Found 4 errors + 1504 warnings) Compiling jalview/src/jalview/log build 14-Mar-2024 12:07:42 (Found 4 errors + 1504 warnings) Compiling jalview/src/jalview/math build 14-Mar-2024 12:07:42 (Found 4 errors + 1539 warnings) Compiling jalview/src/jalview/project build 14-Mar-2024 12:07:42 (Found 4 errors + 1539 warnings) Compiling jalview/src/jalview/renderer build 14-Mar-2024 12:07:42 (Found 4 errors + 1539 warnings) Compiling jalview/src/jalview/renderer/seqfeatures build 14-Mar-2024 12:07:42 (Found 4 errors + 1539 warnings) Compiling jalview/src/jalview/rest build 14-Mar-2024 12:07:42 (Found 4 errors + 1539 warnings) Compiling jalview/src/jalview/schemes build 14-Mar-2024 12:07:42 (Found 4 errors + 1539 warnings) Compiling jalview/src/jalview/structure build 14-Mar-2024 12:07:42 (Found 4 errors + 1545 warnings) Compiling jalview/src/jalview/structure build 14-Mar-2024 12:07:42 (Found 4 errors + 1545 warnings) Compiling jalview/src/jalview/structures/models build 14-Mar-2024 12:07:42 (Found 4 errors + 1545 warnings) Compiling jalview/src/jalview/urls build 14-Mar-2024 12:07:42 (Found 4 errors + 1546 warnings) Compiling jalview/src/jalview/urls build 14-Mar-2024 12:07:42 (Found 4 errors + 1546 warnings) Compiling jalview/src/jalview/urls/api build 14-Mar-2024 12:07:42 (Found 4 errors + 1546 warnings) Compiling jalview/src/jalview/urls/applet build 14-Mar-2024 12:07:42 (Found 4 errors + 1546 warnings) Compiling jalview/src/jalview/urls/desktop build 14-Mar-2024 12:07:42 (Found 4 errors + 1546 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1547 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1548 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1560 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1565 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1567 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1568 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1572 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1573 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1575 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1577 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1581 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1585 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1609 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1610 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1610 warnings) Compiling jalview/src/jalview/util/dialogrunner build 14-Mar-2024 12:07:42 (Found 4 errors + 1610 warnings) Compiling jalview/src/jalview/util build 14-Mar-2024 12:07:42 (Found 4 errors + 1610 warnings) Compiling jalview/src/jalview/util/matcher build 14-Mar-2024 12:07:42 (Found 4 errors + 1611 warnings) Compiling jalview/src/jalview/viewmodel build 14-Mar-2024 12:07:42 (Found 4 errors + 1611 warnings) Compiling jalview/src/jalview/viewmodel/annotationfilter build 14-Mar-2024 12:07:42 (Found 4 errors + 1612 warnings) Compiling jalview/src/jalview/viewmodel/seqfeatures build 14-Mar-2024 12:07:42 (Found 4 errors + 1612 warnings) Compiling jalview/src/jalview/viewmodel/styles build 14-Mar-2024 12:07:42 (Found 4 errors + 1618 warnings) Compiling jalview/src/jalview/workers build 14-Mar-2024 12:07:42 (Found 4 errors + 1622 warnings) Compiling jalview/src/jalview/workers build 14-Mar-2024 12:07:42 (Found 4 errors + 1622 warnings) Compiling jalview/src/jalview/ws build 14-Mar-2024 12:07:42 (Found 4 errors + 1625 warnings) Compiling jalview/src/jalview/ws build 14-Mar-2024 12:07:43 (Found 4 errors + 1626 warnings) Compiling jalview/src/jalview/ws build 14-Mar-2024 12:07:43 (Found 4 errors + 1678 warnings) Compiling jalview/src/jalview/ws build 14-Mar-2024 12:07:43 (Found 4 errors + 1679 warnings) Compiling jalview/src/jalview/ws build 14-Mar-2024 12:07:43 (Found 4 errors + 1684 warnings) Compiling jalview/src/jalview/ws build 14-Mar-2024 12:07:43 (Found 4 errors + 1684 warnings) Compiling jalview/src/jalview/ws/api build 14-Mar-2024 12:07:43 (Found 4 errors + 1685 warnings) Compiling jalview/src/jalview/ws/api build 14-Mar-2024 12:07:43 (Found 4 errors + 1692 warnings) Compiling jalview/src/jalview/ws/dbsources build 14-Mar-2024 12:07:43 (Found 4 errors + 1693 warnings) Compiling jalview/src/jalview/ws/dbsources build 14-Mar-2024 12:07:43 (Found 4 errors + 1696 warnings) Compiling jalview/src/jalview/ws/dbsources build 14-Mar-2024 12:07:43 (Found 4 errors + 1698 warnings) Compiling jalview/src/jalview/ws/dbsources build 14-Mar-2024 12:07:43 (Found 4 errors + 1698 warnings) Compiling jalview/src/jalview/ws/ebi build 14-Mar-2024 12:07:43 (Found 4 errors + 1711 warnings) Compiling jalview/src/jalview/ws/ebi build 14-Mar-2024 12:07:43 (Found 4 errors + 1721 warnings) Compiling jalview/src/jalview/ws/ebi build 14-Mar-2024 12:07:43 (Found 4 errors + 1721 warnings) Compiling jalview/src/jalview/ws/gui build 14-Mar-2024 12:07:43 (Found 4 errors + 1725 warnings) Compiling jalview/src/jalview/ws/gui build 14-Mar-2024 12:07:43 (Found 4 errors + 1728 warnings) Compiling jalview/src/jalview/ws/gui build 14-Mar-2024 12:07:43 (Found 4 errors + 1728 warnings) Compiling jalview/src/jalview/ws/io/mime build 14-Mar-2024 12:07:43 (Found 4 errors + 1728 warnings) Compiling jalview/src/jalview/ws/jws1 build 14-Mar-2024 12:07:43 (Found 4 errors + 1729 warnings) Compiling jalview/src/jalview/ws/jws1 build 14-Mar-2024 12:07:43 (Found 4 errors + 1730 warnings) Compiling jalview/src/jalview/ws/jws1 build 14-Mar-2024 12:07:43 (Found 4 errors + 1735 warnings) Compiling jalview/src/jalview/ws/jws1 build 14-Mar-2024 12:07:43 (Found 4 errors + 1745 warnings) Compiling jalview/src/jalview/ws/jws1 build 14-Mar-2024 12:07:43 (Found 4 errors + 1759 warnings) Compiling jalview/src/jalview/ws/jws1 build 14-Mar-2024 12:07:43 (Found 4 errors + 1762 warnings) Compiling jalview/src/jalview/ws/jws1 build 14-Mar-2024 12:07:43 (Found 4 errors + 1762 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1769 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1783 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1787 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1809 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1813 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1817 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1824 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1825 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1847 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1853 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1856 warnings) Compiling jalview/src/jalview/ws/jws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1859 warnings) Compiling jalview/src/jalview/ws/jws2/dm build 14-Mar-2024 12:07:43 (Found 4 errors + 1863 warnings) Compiling jalview/src/jalview/ws/jws2/dm build 14-Mar-2024 12:07:43 (Found 4 errors + 1866 warnings) Compiling jalview/src/jalview/ws/jws2/dm build 14-Mar-2024 12:07:43 (Found 4 errors + 1877 warnings) Compiling jalview/src/jalview/ws/jws2/dm build 14-Mar-2024 12:07:43 (Found 4 errors + 1877 warnings) Compiling jalview/src/jalview/ws/jws2/jabaws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1880 warnings) Compiling jalview/src/jalview/ws/jws2/jabaws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1887 warnings) Compiling jalview/src/jalview/ws/jws2/jabaws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1892 warnings) Compiling jalview/src/jalview/ws/jws2/jabaws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1898 warnings) Compiling jalview/src/jalview/ws/jws2/jabaws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1906 warnings) Compiling jalview/src/jalview/ws/jws2/jabaws2 build 14-Mar-2024 12:07:43 (Found 4 errors + 1906 warnings) Compiling jalview/src/jalview/ws/params build 14-Mar-2024 12:07:43 (Found 4 errors + 1907 warnings) Compiling jalview/src/jalview/ws/params build 14-Mar-2024 12:07:43 (Found 4 errors + 1907 warnings) Compiling jalview/src/jalview/ws/params/simple build 14-Mar-2024 12:07:43 (Found 4 errors + 1907 warnings) Compiling jalview/src/jalview/ws/rest build 14-Mar-2024 12:07:43 (Found 4 errors + 1911 warnings) Compiling jalview/src/jalview/ws/rest build 14-Mar-2024 12:07:43 (Found 4 errors + 1917 warnings) Compiling jalview/src/jalview/ws/rest build 14-Mar-2024 12:07:43 (Found 4 errors + 1918 warnings) Compiling jalview/src/jalview/ws/rest build 14-Mar-2024 12:07:43 (Found 4 errors + 1923 warnings) Compiling jalview/src/jalview/ws/rest build 14-Mar-2024 12:07:43 (Found 4 errors + 1940 warnings) Compiling jalview/src/jalview/ws/rest build 14-Mar-2024 12:07:43 (Found 4 errors + 1946 warnings) Compiling jalview/src/jalview/ws/rest build 14-Mar-2024 12:07:43 (Found 4 errors + 1947 warnings) Compiling jalview/src/jalview/ws/rest/clientdefs build 14-Mar-2024 12:07:43 (Found 4 errors + 1949 warnings) Compiling jalview/src/jalview/ws/rest/params build 14-Mar-2024 12:07:43 (Found 4 errors + 1951 warnings) Compiling jalview/src/jalview/ws/rest/params build 14-Mar-2024 12:07:43 (Found 4 errors + 1952 warnings) Compiling jalview/src/jalview/ws/rest/params build 14-Mar-2024 12:07:43 (Found 4 errors + 1953 warnings) Compiling jalview/src/jalview/ws/rest/params build 14-Mar-2024 12:07:43 (Found 4 errors + 1954 warnings) Compiling jalview/src/jalview/ws/rest/params build 14-Mar-2024 12:07:43 (Found 4 errors + 1955 warnings) Compiling jalview/src/jalview/ws/rest/params build 14-Mar-2024 12:07:43 (Found 4 errors + 1958 warnings) Compiling jalview/src/jalview/ws/seqfetcher build 14-Mar-2024 12:07:43 (Found 4 errors + 1958 warnings) Compiling jalview/src/jalview/ws/sifts build 14-Mar-2024 12:07:43 (Found 4 errors + 1966 warnings) Compiling jalview/src/jalview/ws/sifts build 14-Mar-2024 12:07:43 (Found 4 errors + 1966 warnings) Compiling jalview/src/jalview/ws/slivkaws build 14-Mar-2024 12:07:43 (Found 4 errors + 1967 warnings) Compiling jalview/src/jalview/ws/slivkaws build 14-Mar-2024 12:07:43 (Found 4 errors + 1968 warnings) Compiling jalview/src/jalview/ws/slivkaws build 14-Mar-2024 12:07:43 (Found 4 errors + 1969 warnings) Compiling jalview/src/jalview/ws/slivkaws build 14-Mar-2024 12:07:43 (Found 4 errors + 1972 warnings) Compiling jalview/src/jalview/ws/uimodel build 14-Mar-2024 12:07:43 (Found 4 errors + 1972 warnings) Compiling jalview/src/jalview/ws/utils build 14-Mar-2024 12:07:43 (Found 4 errors + 1979 warnings) Compiling jalview/src/jalview/ws2/actions build 14-Mar-2024 12:07:43 (Found 4 errors + 1980 warnings) Compiling jalview/src/jalview/ws2/actions build 14-Mar-2024 12:07:43 (Found 4 errors + 1981 warnings) Compiling jalview/src/jalview/ws2/actions build 14-Mar-2024 12:07:43 (Found 4 errors + 1982 warnings) Compiling jalview/src/jalview/ws2/actions build 14-Mar-2024 12:07:43 (Found 4 errors + 1987 warnings) Compiling jalview/src/jalview/ws2/actions/alignment build 14-Mar-2024 12:07:43 (Found 4 errors + 1988 warnings) Compiling jalview/src/jalview/ws2/actions/alignment build 14-Mar-2024 12:07:43 (Found 4 errors + 1989 warnings) Compiling jalview/src/jalview/ws2/actions/alignment build 14-Mar-2024 12:07:43 (Found 4 errors + 1990 warnings) Compiling jalview/src/jalview/ws2/actions/annotation build 14-Mar-2024 12:07:43 (Found 4 errors + 1993 warnings) Compiling jalview/src/jalview/ws2/actions/annotation build 14-Mar-2024 12:07:43 (Found 4 errors + 1995 warnings) Compiling jalview/src/jalview/ws2/actions/api build 14-Mar-2024 12:07:43 (Found 4 errors + 1996 warnings) Compiling jalview/src/jalview/ws2/actions/api build 14-Mar-2024 12:07:43 (Found 4 errors + 1997 warnings) Compiling jalview/src/jalview/ws2/actions/api build 14-Mar-2024 12:07:43 (Found 4 errors + 2000 warnings) Compiling jalview/src/jalview/ws2/actions/hmmer build 14-Mar-2024 12:07:43 (Found 4 errors + 2002 warnings) Compiling jalview/src/jalview/ws2/actions/secstructpred build 14-Mar-2024 12:07:43 (Found 4 errors + 2005 warnings) Compiling jalview/src/jalview/ws2/actions/secstructpred build 14-Mar-2024 12:07:43 (Found 4 errors + 2005 warnings) Compiling jalview/src/jalview/ws2/api build 14-Mar-2024 12:07:43 (Found 4 errors + 2005 warnings) Compiling jalview/src/jalview/ws2/client/api build 14-Mar-2024 12:07:43 (Found 4 errors + 2007 warnings) Compiling jalview/src/jalview/ws2/client/ebi build 14-Mar-2024 12:07:43 (Found 4 errors + 2009 warnings) Compiling jalview/src/jalview/ws2/client/ebi build 14-Mar-2024 12:07:43 (Found 4 errors + 2010 warnings) Compiling jalview/src/jalview/ws2/client/jpred4 build 14-Mar-2024 12:07:43 (Found 4 errors + 2012 warnings) Compiling jalview/src/jalview/ws2/client/jpred4 build 14-Mar-2024 12:07:43 (Found 4 errors + 2015 warnings) Compiling jalview/src/jalview/ws2/client/slivka build 14-Mar-2024 12:07:43 (Found 4 errors + 2017 warnings) Compiling jalview/src/jalview/ws2/client/slivka build 14-Mar-2024 12:07:43 (Found 4 errors + 2018 warnings) Compiling jalview/src/jalview/ws2/client/slivka build 14-Mar-2024 12:07:43 (Found 4 errors + 2026 warnings) Compiling jalview/src/jalview/ws2/gui build 14-Mar-2024 12:07:43 (Found 4 errors + 2030 warnings) Compiling jalview/src/jalview/ws2/gui build 14-Mar-2024 12:07:43 (Found 4 errors + 2033 warnings) Compiling jalview/src/jalview/ws2/gui build 14-Mar-2024 12:07:43 (Found 4 errors + 2033 warnings) Compiling jalview/src/jalview/ws2/helpers build 14-Mar-2024 12:07:43 (Found 4 errors + 2034 warnings) Compiling jalview/src/jalview/ws2/helpers build 14-Mar-2024 12:07:43 (Found 4 errors + 2034 warnings) Compiling jalview/src/jalview/ws2/params build 14-Mar-2024 12:07:43 (Found 4 errors + 2035 warnings) Compiling jalview/src/jalview/ws2/params build 14-Mar-2024 12:07:43 (Found 4 errors + 2035 warnings) Compiling jalview/src/jalview/xml/binding/embl build 14-Mar-2024 12:07:43 (Found 4 errors + 2035 warnings) Compiling jalview/src/jalview/xml/binding/jalview build 14-Mar-2024 12:07:43 (Found 4 errors + 2035 warnings) Compiling jalview/src/jalview/xml/binding/sifts build 14-Mar-2024 12:07:43 (Found 4 errors + 2035 warnings) Compiling jalview/src/jalview/xml/binding/uniprot build 14-Mar-2024 12:07:43 (Found 4 errors + 2036 warnings) Compiling jalview/src/javajs/async build 14-Mar-2024 12:07:43 (Found 4 errors + 2037 warnings) Compiling jalview/src/javajs/async build 14-Mar-2024 12:07:43 (Found 4 errors + 2039 warnings) Compiling jalview/src/javajs/async build 14-Mar-2024 12:07:43 (Found 4 errors + 2046 warnings) Compiling jalview/src/mc_view build 14-Mar-2024 12:07:43 (Found 4 errors + 2047 warnings) Compiling jalview/src/mc_view build 14-Mar-2024 12:07:43 (Found 4 errors + 2052 warnings) Compiling jalview/src/mc_view build 14-Mar-2024 12:07:43 (Found 4 errors + 2059 warnings) Compiling jalview/src/mc_view build 14-Mar-2024 12:07:43 (Found 4 errors + 2060 warnings) Compiling jalview/src/mc_view build 14-Mar-2024 12:07:43 (Found 4 errors + 2061 warnings) Compiling jalview/src/mc_view build 14-Mar-2024 12:07:43 (Found 4 errors + 2061 warnings) Compiling jalview/src/org/jibble/epsgraphics build 14-Mar-2024 12:07:43 (Found 4 errors + 2062 warnings) Compiling jalview/src/org/jibble/epsgraphics build 14-Mar-2024 12:07:43 (Found 4 errors + 2068 warnings) Compiling jalview/src/org/jibble/epsgraphics build 14-Mar-2024 12:07:43 (Found 4 errors + 2068 warnings) Compiling jalview/src/org/json build 14-Mar-2024 12:07:43 (Found 4 errors + 2069 warnings) Compiling jalview/src/org/json build 14-Mar-2024 12:07:43 (Found 4 errors + 2070 warnings) Compiling jalview/src/org/json build 14-Mar-2024 12:07:44 (Found 4 errors + 2081 warnings) Compiling jalview/src/org/json/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2087 warnings) Compiling jalview/src/org/json/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2096 warnings) Compiling jalview/src/org/json/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2098 warnings) Compiling jalview/src/org/json/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2100 warnings) Compiling jalview/src/org/json/simple/parser build 14-Mar-2024 12:07:44 (Found 4 errors + 2175 warnings) Compiling jalview/src/org/json/simple/parser build 14-Mar-2024 12:07:44 (Found 4 errors + 2179 warnings) Compiling jalview/src/org/json/simple/parser build 14-Mar-2024 12:07:44 (Found 4 errors + 2179 warnings) Compiling jalview/src/org/stackoverflowusers/file build 14-Mar-2024 12:07:44 (Found 4 errors + 2180 warnings) Compiling jalview/src/swingjs/api build 14-Mar-2024 12:07:44 (Found 4 errors + 2180 warnings) Compiling jalview/src/swingjs/api/js build 14-Mar-2024 12:07:44 (Found 4 errors + 2181 warnings) Compiling jalview/src/uk/ac/ebi/picr/model build 14-Mar-2024 12:07:44 (Found 4 errors + 2183 warnings) Compiling jalview/src/uk/ac/ebi/picr/model build 14-Mar-2024 12:07:44 (Found 4 errors + 2184 warnings) Compiling jalview/src/uk/ac/ebi/picr/model build 14-Mar-2024 12:07:44 (Found 4 errors + 2186 warnings) Compiling jalview/src/uk/ac/ebi/picr/model build 14-Mar-2024 12:07:44 (Found 4 errors + 2189 warnings) Compiling jalview/src/uk/ac/ebi/www build 14-Mar-2024 12:07:44 (Found 4 errors + 2192 warnings) Compiling jalview/src/uk/ac/ebi/www build 14-Mar-2024 12:07:44 (Found 4 errors + 2195 warnings) Compiling jalview/src/uk/ac/ebi/www build 14-Mar-2024 12:07:44 (Found 4 errors + 2202 warnings) Compiling jalview/src/uk/ac/ebi/www build 14-Mar-2024 12:07:44 (Found 4 errors + 2250 warnings) Compiling jalview/src/uk/ac/ebi/www build 14-Mar-2024 12:07:44 (Found 4 errors + 2292 warnings) Compiling jalview/src/uk/ac/ebi/www/picr/AccessionMappingService build 14-Mar-2024 12:07:44 (Found 4 errors + 2299 warnings) Compiling jalview/src/uk/ac/ebi/www/picr/AccessionMappingService build 14-Mar-2024 12:07:44 (Found 4 errors + 2299 warnings) Compiling jalview/src/vamsas build 14-Mar-2024 12:07:44 (Found 4 errors + 2300 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2302 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2303 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2305 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2306 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2308 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2309 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2311 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2312 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2314 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2315 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2317 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2318 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2320 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2321 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2323 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2324 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2325 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2327 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2329 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2330 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2332 warnings) Compiling jalview/src/vamsas/objects/simple build 14-Mar-2024 12:07:44 (Found 4 errors + 2332 warnings) Cleaning output folder for jalview build 14-Mar-2024 12:07:44 (Found 4 errors + 2332 warnings) Copying resources to the output folder build 14-Mar-2024 12:07:44 (Found 4 errors + 2332 warnings) Analyzing sources build 14-Mar-2024 12:07:44 J2S buildStarting 292 files, contexts.size() = 2, isBatch=true build 14-Mar-2024 12:07:44 (Found 4 errors + 2332 warnings) Compiling jalview/test/jalview/analysis build 14-Mar-2024 12:07:44 (Found 4 errors + 2342 warnings) Compiling jalview/test/jalview/analysis build 14-Mar-2024 12:07:44 (Found 4 errors + 2348 warnings) Compiling jalview/test/jalview/analysis build 14-Mar-2024 12:07:44 (Found 4 errors + 2349 warnings) Compiling jalview/test/jalview/analysis build 14-Mar-2024 12:07:44 (Found 4 errors + 2351 warnings) Compiling jalview/test/jalview/analysis build 14-Mar-2024 12:07:44 (Found 4 errors + 2392 warnings) Compiling jalview/test/jalview/analysis build 14-Mar-2024 12:07:44 (Found 4 errors + 2392 warnings) Compiling jalview/test/jalview/analysis/scoremodels build 14-Mar-2024 12:07:44 (Found 4 errors + 2397 warnings) Compiling jalview/test/jalview/analysis/scoremodels build 14-Mar-2024 12:07:44 (Found 4 errors + 2398 warnings) Compiling jalview/test/jalview/analysis/scoremodels build 14-Mar-2024 12:07:44 (Found 4 errors + 2398 warnings) Compiling jalview/test/jalview/bin build 14-Mar-2024 12:07:44 (Found 4 errors + 2399 warnings) Compiling jalview/test/jalview/bin build 14-Mar-2024 12:07:44 (Found 4 errors + 2400 warnings) Compiling jalview/test/jalview/commands build 14-Mar-2024 12:07:44 (Found 4 errors + 2401 warnings) Compiling jalview/test/jalview/controller build 14-Mar-2024 12:07:44 (Found 4 errors + 2401 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:44 (Found 4 errors + 2402 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:44 (Found 4 errors + 2415 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:44 (Found 4 errors + 2418 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2420 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2430 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2431 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2432 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2433 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2434 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2435 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2438 warnings) Compiling jalview/test/jalview/datamodel build 14-Mar-2024 12:07:45 (Found 4 errors + 2439 warnings) Compiling jalview/test/jalview/datamodel/features build 14-Mar-2024 12:07:45 (Found 4 errors + 2440 warnings) Compiling jalview/test/jalview/datamodel/features build 14-Mar-2024 12:07:45 (Found 4 errors + 2440 warnings) Compiling jalview/test/jalview/ext/android build 14-Mar-2024 12:07:45 (Found 4 errors + 2440 warnings) Compiling jalview/test/jalview/ext/ensembl build 14-Mar-2024 12:07:45 (Found 4 errors + 2440 warnings) Compiling jalview/test/jalview/ext/htsjdk build 14-Mar-2024 12:07:45 (Found 4 errors + 2441 warnings) Compiling jalview/test/jalview/ext/jmol build 14-Mar-2024 12:07:45 (Found 4 errors + 2442 warnings) Compiling jalview/test/jalview/ext/jmol build 14-Mar-2024 12:07:45 (Found 4 errors + 2442 warnings) Compiling jalview/test/jalview/ext/paradise build 14-Mar-2024 12:07:45 (Found 4 errors + 2442 warnings) Compiling jalview/test/jalview/ext/pymol build 14-Mar-2024 12:07:45 (Found 4 errors + 2442 warnings) Compiling jalview/test/jalview/ext/rbvi/chimera build 14-Mar-2024 12:07:45 (Found 4 errors + 2442 warnings) Compiling jalview/test/jalview/ext/so build 14-Mar-2024 12:07:45 (Found 4 errors + 2442 warnings) Compiling jalview/test/jalview/fts/core build 14-Mar-2024 12:07:45 (Found 4 errors + 2442 warnings) Compiling jalview/test/jalview/fts/service/pdb build 14-Mar-2024 12:07:45 (Found 4 errors + 2443 warnings) Compiling jalview/test/jalview/fts/service/pdb build 14-Mar-2024 12:07:45 (Found 4 errors + 2444 warnings) Compiling jalview/test/jalview/fts/threedbeacons build 14-Mar-2024 12:07:45 (Found 4 errors + 2449 warnings) Compiling jalview/test/jalview/fts/threedbeacons build 14-Mar-2024 12:07:45 (Found 4 errors + 2450 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2453 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2454 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2455 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2457 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2460 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2461 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2462 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2464 warnings) Compiling jalview/test/jalview/gui build 14-Mar-2024 12:07:45 (Found 4 errors + 2465 warnings) Compiling jalview/test/jalview/gui/structurechooser build 14-Mar-2024 12:07:45 (Found 4 errors + 2465 warnings) Compiling jalview/test/jalview/hmmer build 14-Mar-2024 12:07:45 (Found 4 errors + 2466 warnings) Compiling jalview/test/jalview/io build 14-Mar-2024 12:07:45 (Found 4 errors + 2467 warnings) Compiling jalview/test/jalview/io build 14-Mar-2024 12:07:45 (Found 4 errors + 2471 warnings) Compiling jalview/test/jalview/io build 14-Mar-2024 12:07:45 (Found 4 errors + 2475 warnings) Compiling jalview/test/jalview/io build 14-Mar-2024 12:07:45 (Found 4 errors + 2477 warnings) Compiling jalview/test/jalview/io build 14-Mar-2024 12:07:45 (Found 4 errors + 2478 warnings) Compiling jalview/test/jalview/io build 14-Mar-2024 12:07:45 (Found 4 errors + 2481 warnings) Compiling jalview/test/jalview/io build 14-Mar-2024 12:07:45 (Found 4 errors + 2481 warnings) Compiling jalview/test/jalview/io/cache build 14-Mar-2024 12:07:45 (Found 4 errors + 2481 warnings) Compiling jalview/test/jalview/io/gff build 14-Mar-2024 12:07:45 (Found 4 errors + 2482 warnings) Compiling jalview/test/jalview/io/gff build 14-Mar-2024 12:07:45 (Found 4 errors + 2491 warnings) Compiling jalview/test/jalview/io/vcf build 14-Mar-2024 12:07:45 (Found 4 errors + 2491 warnings) Compiling jalview/test/jalview/math build 14-Mar-2024 12:07:45 (Found 4 errors + 2494 warnings) Compiling jalview/test/jalview/project build 14-Mar-2024 12:07:45 (Found 4 errors + 2496 warnings) Compiling jalview/test/jalview/renderer build 14-Mar-2024 12:07:45 (Found 4 errors + 2497 warnings) Compiling jalview/test/jalview/renderer build 14-Mar-2024 12:07:45 (Found 4 errors + 2498 warnings) Compiling jalview/test/jalview/renderer/seqfeatures build 14-Mar-2024 12:07:46 (Found 4 errors + 2498 warnings) Compiling jalview/test/jalview/schemes build 14-Mar-2024 12:07:46 (Found 4 errors + 2499 warnings) Compiling jalview/test/jalview/schemes build 14-Mar-2024 12:07:46 (Found 4 errors + 2499 warnings) Compiling jalview/test/jalview/structure build 14-Mar-2024 12:07:46 (Found 4 errors + 2501 warnings) Compiling jalview/test/jalview/structure build 14-Mar-2024 12:07:46 (Found 4 errors + 2502 warnings) Compiling jalview/test/jalview/structure build 14-Mar-2024 12:07:46 (Found 4 errors + 2503 warnings) Compiling jalview/test/jalview/structure build 14-Mar-2024 12:07:46 (Found 4 errors + 2506 warnings) Compiling jalview/test/jalview/structure build 14-Mar-2024 12:07:46 (Found 4 errors + 2506 warnings) Compiling jalview/test/jalview/structures/models build 14-Mar-2024 12:07:46 (Found 4 errors + 2506 warnings) Compiling jalview/test/jalview/testutils build 14-Mar-2024 12:07:46 (Found 4 errors + 2507 warnings) Compiling jalview/test/jalview/testutils build 14-Mar-2024 12:07:46 (Found 4 errors + 2508 warnings) Compiling jalview/test/jalview/urls build 14-Mar-2024 12:07:46 (Found 4 errors + 2513 warnings) Compiling jalview/test/jalview/urls build 14-Mar-2024 12:07:46 (Found 4 errors + 2518 warnings) Compiling jalview/test/jalview/urls build 14-Mar-2024 12:07:46 (Found 4 errors + 2518 warnings) Compiling jalview/test/jalview/util build 14-Mar-2024 12:07:46 (Found 4 errors + 2525 warnings) Compiling jalview/test/jalview/util build 14-Mar-2024 12:07:46 (Found 4 errors + 2526 warnings) Compiling jalview/test/jalview/util build 14-Mar-2024 12:07:46 (Found 4 errors + 2530 warnings) Compiling jalview/test/jalview/util build 14-Mar-2024 12:07:46 (Found 4 errors + 2531 warnings) Compiling jalview/test/jalview/util build 14-Mar-2024 12:07:46 (Found 4 errors + 2536 warnings) Compiling jalview/test/jalview/util build 14-Mar-2024 12:07:46 (Found 4 errors + 2536 warnings) Compiling jalview/test/jalview/util/dialogrunner build 14-Mar-2024 12:07:46 (Found 4 errors + 2536 warnings) Compiling jalview/test/jalview/util/matcher build 14-Mar-2024 12:07:46 (Found 4 errors + 2539 warnings) Compiling jalview/test/jalview/util/matcher build 14-Mar-2024 12:07:46 (Found 4 errors + 2545 warnings) Compiling jalview/test/jalview/viewmodel build 14-Mar-2024 12:07:46 (Found 4 errors + 2551 warnings) Compiling jalview/test/jalview/viewmodel build 14-Mar-2024 12:07:46 (Found 4 errors + 2552 warnings) Compiling jalview/test/jalview/viewmodel/styles build 14-Mar-2024 12:07:46 (Found 4 errors + 2552 warnings) Compiling jalview/test/jalview/workers build 14-Mar-2024 12:07:46 (Found 4 errors + 2552 warnings) Compiling jalview/test/jalview/ws build 14-Mar-2024 12:07:46 (Found 4 errors + 2554 warnings) Compiling jalview/test/jalview/ws build 14-Mar-2024 12:07:46 (Found 4 errors + 2572 warnings) Compiling jalview/test/jalview/ws/dbsources build 14-Mar-2024 12:07:46 (Found 4 errors + 2572 warnings) Compiling jalview/test/jalview/ws/ebi build 14-Mar-2024 12:07:46 (Found 4 errors + 2580 warnings) Compiling jalview/test/jalview/ws/gui build 14-Mar-2024 12:07:46 (Found 4 errors + 2580 warnings) Compiling jalview/test/jalview/ws/jabaws build 14-Mar-2024 12:07:46 (Found 4 errors + 2581 warnings) Compiling jalview/test/jalview/ws/jabaws build 14-Mar-2024 12:07:46 (Found 4 errors + 2582 warnings) Compiling jalview/test/jalview/ws/jabaws build 14-Mar-2024 12:07:46 (Found 4 errors + 2583 warnings) Compiling jalview/test/jalview/ws/jabaws build 14-Mar-2024 12:07:46 (Found 4 errors + 2587 warnings) Compiling jalview/test/jalview/ws/jabaws build 14-Mar-2024 12:07:46 (Found 4 errors + 2605 warnings) Compiling jalview/test/jalview/ws/jws2 build 14-Mar-2024 12:07:46 (Found 4 errors + 2605 warnings) Compiling jalview/test/jalview/ws/rest build 14-Mar-2024 12:07:46 (Found 4 errors + 2606 warnings) Compiling jalview/test/jalview/ws/rest build 14-Mar-2024 12:07:46 (Found 4 errors + 2606 warnings) Compiling jalview/test/jalview/ws/seqfetcher build 14-Mar-2024 12:07:46 (Found 4 errors + 2606 warnings) Compiling jalview/test/jalview/ws/sifts build 14-Mar-2024 12:07:46 (Found 4 errors + 2608 warnings) Compiling jalview/test/jalview/ws/utils build 14-Mar-2024 12:07:46 (Found 4 errors + 2616 warnings) Compiling jalview/test/jalview/ws2/actions/alignment build 14-Mar-2024 12:07:46 (Found 4 errors + 2616 warnings) Compiling jalview/test/jalview/ws2/actions/annotation build 14-Mar-2024 12:07:46 (Found 4 errors + 2616 warnings) Compiling jalview/test/jalview/ws2/actions/secstructpred build 14-Mar-2024 12:07:46 (Found 4 errors + 2616 warnings) Compiling jalview/test/jalview/ws2/client/slivka build 14-Mar-2024 12:07:46 (Found 4 errors + 2632 warnings) Compiling jalview/test/junit/extensions build 14-Mar-2024 12:07:46 (Found 4 errors + 2634 warnings) Compiling jalview/test/junit/extensions build 14-Mar-2024 12:07:46 (Found 4 errors + 2634 warnings) Compiling jalview/test/mc_view build 14-Mar-2024 12:07:46 (Found 4 errors + 2635 warnings) Compiling jalview/test/mc_view build 14-Mar-2024 12:07:46 J2S using configuration file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/.j2s build 14-Mar-2024 12:07:46 j2s.config.altfileproperty = org.jalview.jalviewjsj2sfilename build 14-Mar-2024 12:07:46 J2S System.getProperty("org.jalview.jalviewjsj2sfilename") = ./build/jalviewjs/config/j2s build 14-Mar-2024 12:07:46 J2S using configuration file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/config/j2s build 14-Mar-2024 12:07:46 j2s.compiler.status = enable build 14-Mar-2024 12:07:46 j2s.compiler.java.version = 8 build 14-Mar-2024 12:07:46 J2S compiler version set to 8 build 14-Mar-2024 12:07:46 j2s.break.on.error = false build 14-Mar-2024 12:07:46 j2s.exact.long = true build 14-Mar-2024 12:07:46 j2s.async.thread = false build 14-Mar-2024 12:07:46 j2s.compiler.mode = nodebug build 14-Mar-2024 12:07:46 j2s.site.directory = ./build/jalviewjs/tmp/site_js build 14-Mar-2024 12:07:46 J2S writing to /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/tmp/site_js/swingjs/j2s build 14-Mar-2024 12:07:46 j2s.log.methods.declared = build 14-Mar-2024 12:07:46 j2s.log.methods.called = build 14-Mar-2024 12:07:46 j2s.excluded.paths = test;testng;util build 14-Mar-2024 12:07:46 j2s.compiler.read.annotations = true build 14-Mar-2024 12:07:46 j2s.compiler.ignored.annotations = CallerSensitive;ConstructorProperties;Deprecated;Override;SafeVarargs;SuppressWarnings;FunctionalInterface;Documented;Inherited;Native;Repeatable;Retention; build 14-Mar-2024 12:07:46 j2s.testing = false build 14-Mar-2024 12:07:46 j2s.compiler.nonqualified.packages = build 14-Mar-2024 12:07:46 j2s.compiler.nonqualified.classes = build 14-Mar-2024 12:07:46 j2s.class.replacements = build 14-Mar-2024 12:07:46 j2s.template.html = utils/jalviewjs/template.html build 14-Mar-2024 12:07:46 J2S using HTML template /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/utils/jalviewjs/template.html build 14-Mar-2024 12:07:46 J2S building JavaScript jalview /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 Thu Mar 14 12:07:46 GMT 2024 build 14-Mar-2024 12:07:46 J2S building JavaScript for 1185 files build 14-Mar-2024 12:07:46 J2S transpiling (1/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/github/reinert/jjschema/Attributes.java build 14-Mar-2024 12:07:47 j2s copying resources from /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com to /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/tmp/site_js/swingjs/j2s/com build 14-Mar-2024 12:07:47 J2S transpiling (2/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/AmpersandRule.java build 14-Mar-2024 12:07:47 J2S transpiling (3/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Any.java build 14-Mar-2024 12:07:47 J2S transpiling (4/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/BackG.java build 14-Mar-2024 12:07:47 J2S transpiling (5/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/BackMatch.java build 14-Mar-2024 12:07:47 J2S transpiling (6/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/BackRefRule.java build 14-Mar-2024 12:07:47 J2S transpiling (7/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Backup.java build 14-Mar-2024 12:07:47 J2S transpiling (8/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/BasicStringBufferLike.java build 14-Mar-2024 12:07:47 J2S transpiling (9/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Bits.java build 14-Mar-2024 12:07:47 J2S transpiling (10/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Boundary.java build 14-Mar-2024 12:07:47 J2S transpiling (11/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Bracket.java build 14-Mar-2024 12:07:47 J2S transpiling (12/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/CaseMgr.java build 14-Mar-2024 12:07:47 J2S transpiling (13/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/ChangeRule.java build 14-Mar-2024 12:07:47 J2S transpiling (14/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/CodeRule.java build 14-Mar-2024 12:07:47 J2S transpiling (15/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Ctrl.java build 14-Mar-2024 12:07:47 J2S transpiling (16/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Custom.java build 14-Mar-2024 12:07:47 J2S transpiling (17/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/CustomEndpoint.java build 14-Mar-2024 12:07:47 J2S transpiling (18/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/DirFileRegex.java build 14-Mar-2024 12:07:48 J2S transpiling (19/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/DotMulti.java build 14-Mar-2024 12:07:48 J2S transpiling (20/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/End.java build 14-Mar-2024 12:07:48 J2S transpiling (21/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/FastBracket.java build 14-Mar-2024 12:07:48 J2S transpiling (22/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/FastMulti.java build 14-Mar-2024 12:07:48 J2S transpiling (23/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/FileRegex.java build 14-Mar-2024 12:07:48 J2S transpiling (24/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Group.java build 14-Mar-2024 12:07:48 J2S transpiling (25/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/LeftRule.java build 14-Mar-2024 12:07:48 J2S transpiling (26/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Multi.java build 14-Mar-2024 12:07:48 J2S transpiling (27/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/MultiMin.java build 14-Mar-2024 12:07:48 J2S transpiling (28/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Multi_stage2.java build 14-Mar-2024 12:07:48 J2S transpiling (29/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/NoPattern.java build 14-Mar-2024 12:07:48 J2S transpiling (30/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/NonDirFileRegex.java build 14-Mar-2024 12:07:48 J2S transpiling (31/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/NotImplementedError.java build 14-Mar-2024 12:07:48 J2S transpiling (32/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/NullPattern.java build 14-Mar-2024 12:07:48 J2S transpiling (33/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/NullRule.java build 14-Mar-2024 12:07:48 J2S transpiling (34/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Or.java build 14-Mar-2024 12:07:48 J2S transpiling (35/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/OrMark.java build 14-Mar-2024 12:07:48 J2S transpiling (36/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/PartialBuffer.java build 14-Mar-2024 12:07:48 J2S transpiling (37/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Pattern.java build 14-Mar-2024 12:07:48 J2S transpiling (38/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/PatternSub.java build 14-Mar-2024 12:07:48 J2S transpiling (39/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/PopRule.java build 14-Mar-2024 12:07:48 J2S transpiling (40/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Prop.java build 14-Mar-2024 12:07:48 J2S transpiling (41/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Pthings.java build 14-Mar-2024 12:07:48 J2S transpiling (42/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/PushRule.java build 14-Mar-2024 12:07:48 J2S transpiling (43/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RBuffer.java build 14-Mar-2024 12:07:48 J2S transpiling (44/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Range.java build 14-Mar-2024 12:07:48 J2S transpiling (45/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RegOpt.java build 14-Mar-2024 12:07:48 J2S transpiling (46/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RegRes.java build 14-Mar-2024 12:07:48 J2S transpiling (47/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RegSyntax.java build 14-Mar-2024 12:07:48 J2S transpiling (48/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RegSyntaxError.java build 14-Mar-2024 12:07:48 J2S transpiling (49/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Regex.java build 14-Mar-2024 12:07:48 J2S transpiling (50/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RegexReader.java build 14-Mar-2024 12:07:48 J2S transpiling (51/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RegexTokenizer.java build 14-Mar-2024 12:07:48 J2S transpiling (52/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RegexWriter.java build 14-Mar-2024 12:07:48 >>>main found for com.stevesoft.pat.RegexWriter build 14-Mar-2024 12:07:48 J2S creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/tmp/site_js/com_stevesoft_pat_RegexWriter.html build 14-Mar-2024 12:07:48 J2S transpiling (53/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/ReplaceRule.java build 14-Mar-2024 12:07:48 J2S transpiling (54/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Replacer.java build 14-Mar-2024 12:07:48 J2S transpiling (55/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RightRule.java build 14-Mar-2024 12:07:48 J2S transpiling (56/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Rthings.java build 14-Mar-2024 12:07:48 J2S transpiling (57/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/RuleHolder.java build 14-Mar-2024 12:07:48 J2S transpiling (58/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Skip.java build 14-Mar-2024 12:07:48 J2S transpiling (59/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Skip2.java build 14-Mar-2024 12:07:48 J2S transpiling (60/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/SkipBMH.java build 14-Mar-2024 12:07:48 J2S transpiling (61/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Skipped.java build 14-Mar-2024 12:07:48 J2S transpiling (62/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/SpecialRule.java build 14-Mar-2024 12:07:48 J2S transpiling (63/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Start.java build 14-Mar-2024 12:07:48 J2S transpiling (64/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/StrPos.java build 14-Mar-2024 12:07:48 J2S transpiling (65/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/StringBufferLike.java build 14-Mar-2024 12:07:48 J2S transpiling (66/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/StringLike.java build 14-Mar-2024 12:07:48 J2S transpiling (67/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/StringRule.java build 14-Mar-2024 12:07:48 J2S transpiling (68/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/SubMark.java build 14-Mar-2024 12:07:48 J2S transpiling (69/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/TransPat.java build 14-Mar-2024 12:07:48 J2S transpiling (70/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Transformer.java build 14-Mar-2024 12:07:49 J2S transpiling (71/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/UniValidator.java build 14-Mar-2024 12:07:49 J2S transpiling (72/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/Validator.java build 14-Mar-2024 12:07:49 J2S transpiling (73/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/WantMoreTextReplaceRule.java build 14-Mar-2024 12:07:49 J2S transpiling (74/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/lookAhead.java build 14-Mar-2024 12:07:49 J2S transpiling (75/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/oneChar.java build 14-Mar-2024 12:07:49 J2S transpiling (76/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/parsePerl.java build 14-Mar-2024 12:07:49 J2S transpiling (77/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/com/stevesoft/pat/patInf.java build 14-Mar-2024 12:07:49 J2S transpiling (78/1185) 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/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/EditNameDialog.java build 14-Mar-2024 12:07:53 J2S transpiling (196/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/EmbmenuFrame.java build 14-Mar-2024 12:07:53 J2S transpiling (197/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/ExtJmol.java build 14-Mar-2024 12:07:53 J2S transpiling (198/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/FeatureColourChooser.java build 14-Mar-2024 12:07:53 J2S transpiling (199/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/FeatureRenderer.java build 14-Mar-2024 12:07:53 J2S transpiling (200/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/FeatureSettings.java build 14-Mar-2024 12:07:53 J2S transpiling (201/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/Finder.java build 14-Mar-2024 12:07:53 J2S transpiling (202/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/FontChooser.java build 14-Mar-2024 12:07:53 J2S transpiling (203/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/IdCanvas.java build 14-Mar-2024 12:07:53 J2S transpiling (204/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/IdPanel.java build 14-Mar-2024 12:07:53 J2S transpiling (205/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/IdwidthAdjuster.java build 14-Mar-2024 12:07:53 J2S transpiling (206/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/JVDialog.java build 14-Mar-2024 12:07:53 J2S transpiling (207/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/OverviewCanvas.java build 14-Mar-2024 12:07:53 >>class jalview.appletgui.OverviewCanvas extended java.awt.Component now extends java.awt.Label build 14-Mar-2024 12:07:53 J2S transpiling (208/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/OverviewPanel.java build 14-Mar-2024 12:07:53 J2S transpiling (209/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/PCAPanel.java build 14-Mar-2024 12:07:53 J2S transpiling (210/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/PaintRefresher.java build 14-Mar-2024 12:07:53 J2S transpiling (211/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/PairwiseAlignPanel.java build 14-Mar-2024 12:07:53 J2S transpiling (212/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/RedundancyPanel.java build 14-Mar-2024 12:07:53 J2S transpiling (213/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/RotatableCanvas.java build 14-Mar-2024 12:07:53 J2S transpiling (214/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/ScalePanel.java build 14-Mar-2024 12:07:53 J2S transpiling (215/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/SeqCanvas.java build 14-Mar-2024 12:07:54 J2S transpiling (216/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/SeqPanel.java build 14-Mar-2024 12:07:54 J2S transpiling (217/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/SequenceRenderer.java build 14-Mar-2024 12:07:54 J2S transpiling (218/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/SliderPanel.java build 14-Mar-2024 12:07:54 J2S transpiling (219/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/SplitFrame.java build 14-Mar-2024 12:07:54 J2S transpiling (220/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/TitledPanel.java build 14-Mar-2024 12:07:54 J2S transpiling (221/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/Tooltip.java build 14-Mar-2024 12:07:54 J2S transpiling (222/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/TreeCanvas.java build 14-Mar-2024 12:07:54 J2S transpiling (223/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/TreePanel.java build 14-Mar-2024 12:07:54 J2S transpiling (224/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/UserDefinedColours.java build 14-Mar-2024 12:07:54 J2S transpiling (225/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/js/JSFunctionExec.java build 14-Mar-2024 12:07:54 J2S transpiling (226/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/js/JalviewLiteJsApi.java build 14-Mar-2024 12:07:54 J2S transpiling (227/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/js/JsCallBack.java build 14-Mar-2024 12:07:54 J2S transpiling (228/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/js/JsSelectionSender.java build 14-Mar-2024 12:07:54 J2S transpiling (229/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/js/MouseOverListener.java build 14-Mar-2024 12:07:54 J2S transpiling (230/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/appletgui/js/MouseOverStructureListener.java build 14-Mar-2024 12:07:54 J2S transpiling (231/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/bin/AppletParams.java build 14-Mar-2024 12:07:54 >>>main found for jalview.bin.AppletParams build 14-Mar-2024 12:07:54 J2S creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/tmp/site_js/jalview_bin_AppletParams.html build 14-Mar-2024 12:07:54 J2S transpiling (232/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/bin/ApplicationSingletonProvider.java build 14-Mar-2024 12:07:54 J2S transpiling (233/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/bin/ArgsParser.java build 14-Mar-2024 12:07:54 J2S transpiling (234/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/bin/BuildDetails.java build 14-Mar-2024 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12:07:55 J2S creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/tmp/site_js/jalview_bin_JalviewLiteURLRetrieve_applet.html build 14-Mar-2024 12:07:55 J2S transpiling (244/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/bin/JalviewTaskbar.java build 14-Mar-2024 12:07:55 J2S transpiling (245/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/bin/Launcher.java build 14-Mar-2024 12:07:55 >>>main found for jalview.bin.Launcher build 14-Mar-2024 12:07:55 J2S creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/tmp/site_js/jalview_bin_Launcher.html build 14-Mar-2024 12:07:55 J2S transpiling (246/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/bin/MemorySetting.java build 14-Mar-2024 12:07:55 J2S transpiling (247/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/bin/ScreenInfo.java 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/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/dbsources/Uniprot.java build 14-Mar-2024 12:08:08 J2S transpiling (846/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/dbsources/UniprotName.java build 14-Mar-2024 12:08:08 J2S transpiling (847/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/dbsources/Xfam.java build 14-Mar-2024 12:08:08 J2S transpiling (848/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/ebi/EBIFetchClient.java build 14-Mar-2024 12:08:08 J2S transpiling (849/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/ebi/HmmerJSONProcessor.java build 14-Mar-2024 12:08:08 J2S transpiling (850/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/ebi/hmmerClient.java build 14-Mar-2024 12:08:08 >>>main found for jalview.ws.ebi.hmmerClient build 14-Mar-2024 12:08:08 J2S creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/tmp/site_js/jalview_ws_ebi_hmmerClient.html build 14-Mar-2024 12:08:08 J2S transpiling (851/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/gui/AnnotationWsJob.java build 14-Mar-2024 12:08:08 J2S transpiling (852/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/gui/MsaWSJob.java build 14-Mar-2024 12:08:08 J2S transpiling (853/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/gui/MsaWSThread.java build 14-Mar-2024 12:08:08 J2S transpiling (854/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/gui/WsJob.java build 14-Mar-2024 12:08:08 J2S transpiling (855/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/io/mime/HttpContentHandler.java build 14-Mar-2024 12:08:08 J2S transpiling (856/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/io/mime/JalviewMimeContentHandler.java build 14-Mar-2024 12:08:08 J2S transpiling (857/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/io/mime/MimeTypes.java build 14-Mar-2024 12:08:08 J2S transpiling (858/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/Annotate3D.java build 14-Mar-2024 12:08:08 J2S transpiling (859/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/Discoverer.java build 14-Mar-2024 12:08:08 J2S transpiling (860/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/JPredClient.java build 14-Mar-2024 12:08:08 J2S transpiling (861/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/JPredThread.java build 14-Mar-2024 12:08:08 J2S transpiling (862/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/JWS1Thread.java build 14-Mar-2024 12:08:08 J2S transpiling (863/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/MsaWSClient.java build 14-Mar-2024 12:08:08 J2S transpiling (864/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/MsaWSThread.java build 14-Mar-2024 12:08:09 J2S transpiling (865/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/SeqSearchWSClient.java build 14-Mar-2024 12:08:09 J2S transpiling (866/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/SeqSearchWSThread.java build 14-Mar-2024 12:08:09 J2S transpiling (867/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/WS1Client.java build 14-Mar-2024 12:08:09 J2S transpiling (868/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws1/WSJob.java build 14-Mar-2024 12:08:09 J2S transpiling (869/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/AWS2Thread.java build 14-Mar-2024 12:08:09 J2S transpiling (870/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/JWs2Job.java build 14-Mar-2024 12:08:09 J2S transpiling (871/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/JabaParamStore.java build 14-Mar-2024 12:08:09 J2S transpiling (872/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/JabaPreset.java build 14-Mar-2024 12:08:09 J2S transpiling (873/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/JabaWsParamTest.java build 14-Mar-2024 12:08:09 >>>main found for jalview.ws.jws2.JabaWsParamTest build 14-Mar-2024 12:08:09 J2S creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/./build/jalviewjs/tmp/site_js/jalview_ws_jws2_JabaWsParamTest.html build 14-Mar-2024 12:08:09 J2S transpiling (874/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/JabaWsServerQuery.java build 14-Mar-2024 12:08:09 J2S transpiling (875/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/Jws2Client.java build 14-Mar-2024 12:08:09 J2S transpiling (876/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/Jws2ClientFactory.java build 14-Mar-2024 12:08:09 J2S transpiling (877/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/Jws2Discoverer.java build 14-Mar-2024 12:08:09 J2S transpiling (878/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/MsaWSClient.java build 14-Mar-2024 12:08:09 J2S transpiling (879/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/ParameterUtils.java build 14-Mar-2024 12:08:09 J2S transpiling (880/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/PreferredServiceChangeListener.java build 14-Mar-2024 12:08:09 J2S transpiling (881/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/PreferredServiceRegistry.java build 14-Mar-2024 12:08:09 J2S transpiling (882/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/SeqAnnotationServiceCalcWorker.java build 14-Mar-2024 12:08:09 J2S transpiling (883/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/SequenceAnnotationWSClient.java build 14-Mar-2024 12:08:09 J2S transpiling (884/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/dm/AAConSettings.java build 14-Mar-2024 12:08:09 J2S transpiling 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/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/jabaws2/JabawsAnnotationInstance.java build 14-Mar-2024 12:08:09 J2S transpiling (892/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/jabaws2/JabawsMsaInstance.java build 14-Mar-2024 12:08:09 J2S transpiling (893/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/jabaws2/JabawsMsaInterfaceAlignCalcWorker.java build 14-Mar-2024 12:08:09 J2S transpiling (894/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/jabaws2/JabawsServiceInstance.java build 14-Mar-2024 12:08:09 J2S transpiling (895/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/jabaws2/Jws2Instance.java build 14-Mar-2024 12:08:09 J2S transpiling (896/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java build 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transpiling (903/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/params/ParamManager.java build 14-Mar-2024 12:08:09 J2S transpiling (904/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/params/ParameterI.java build 14-Mar-2024 12:08:09 J2S transpiling (905/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/params/ValueConstrainI.java build 14-Mar-2024 12:08:09 J2S transpiling (906/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/params/WsParamSetI.java build 14-Mar-2024 12:08:09 J2S transpiling (907/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/params/simple/BooleanOption.java build 14-Mar-2024 12:08:09 J2S transpiling (908/1185) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/src/jalview/ws/params/simple/DoubleParameter.java build 14-Mar-2024 12:08:09 J2S transpiling (909/1185) 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14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/viewmodel/OverviewDimensionsHideHiddenTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/viewmodel/OverviewDimensionsShowHiddenTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/viewmodel/ViewportRangesTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/viewmodel/styles/ViewStyleTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/workers/AlignCaclManager2Test.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/workers/AlignCalcManagerTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/PDBSequenceFetcherTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/SequenceFetcherTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/dbsources/EmblXmlSourceTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/dbsources/PfamFullTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/dbsources/PfamSeedTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/dbsources/RemoteFormatTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/dbsources/RfamFullTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/dbsources/RfamSeedTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/dbsources/UniprotTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/dbsources/XfamFetcherTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/ebi/EBIFetchClientTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/ebi/HmmerJSONProcessTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/gui/Jws2ParamView.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/jabaws/AAConAnnotAndSettingsIO.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/jabaws/DisorderAnnotExportImport.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/jabaws/JalviewJabawsTestUtils.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/jabaws/MinJabawsClientTests.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/jabaws/RNAStructExportImport.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/jws2/ParameterUtilsTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/rest/RestClientTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/rest/ShmmrRSBSService.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/seqfetcher/DbRefFetcherTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/sifts/SiftsClientTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws/utils/UrlDownloadClientTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws2/actions/alignment/AlignmentActionTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws2/actions/annotation/AnnotationJobTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws2/actions/secstructpred/SecStructPredMsaTaskTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws2/actions/secstructpred/SecStructPredPDBSearchTaskTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/jalview/ws2/client/slivka/SlivkaWSDiscovererTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/junit/extensions/PA.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/junit/extensions/PrivilegedAccessor.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/mc_view/AtomTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/mc_view/BondTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/mc_view/PDBChainTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/mc_view/PDBfileTest.java build 14-Mar-2024 12:08:12 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/test/mc_view/ResidueTest.java build 14-Mar-2024 12:08:12 J2S processed 1185 .java files, created 1216 .js files and 10 .html files, copied 6 resources build 14-Mar-2024 12:08:12 J2S buildFinished 1185 files transpiled for /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 build 14-Mar-2024 12:08:12 J2S buildFinished nerror = 0 Thu Mar 14 12:08:12 GMT 2024 build 14-Mar-2024 12:08:12 (Found 4 errors + 2635 warnings) Build done build 14-Mar-2024 12:08:12 Invoking 'Gradle Project Builder' on '/jalview'. build 14-Mar-2024 12:08:13 :jalviewjsTranspile (Thread[Execution worker for ':',5,main]) completed. Took 43.473 secs. build 14-Mar-2024 12:08:13 :jalviewjsCopyTransferSiteJs (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:14 build 14-Mar-2024 12:08:14 > Task :jalviewjsCopyTransferSiteJs build 14-Mar-2024 12:08:14 Caching disabled for task ':jalviewjsCopyTransferSiteJs' because: build 14-Mar-2024 12:08:14 Build cache is disabled build 14-Mar-2024 12:08:14 Task ':jalviewjsCopyTransferSiteJs' is not up-to-date because: build 14-Mar-2024 12:08:14 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site has been removed. build 14-Mar-2024 12:08:14 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/com_stevesoft_pat_RegexWriter.html has been removed. build 14-Mar-2024 12:08:14 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/jalview_bin_AppletParams.html has been removed. build 14-Mar-2024 12:08:14 :jalviewjsCopyTransferSiteJs (Thread[Execution worker for ':',5,main]) completed. Took 0.304 secs. build 14-Mar-2024 12:08:14 :jalviewjsTransferUnzipLib (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:14 build 14-Mar-2024 12:08:14 > Task :jalviewjsTransferUnzipLib build 14-Mar-2024 12:08:14 Caching disabled for task ':jalviewjsTransferUnzipLib' because: build 14-Mar-2024 12:08:14 Build cache is disabled build 14-Mar-2024 12:08:14 Task ':jalviewjsTransferUnzipLib' is not up-to-date because: build 14-Mar-2024 12:08:14 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_lib has been removed. build 14-Mar-2024 12:08:14 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_lib/fr_orsay_lri_varna_applications_AlignmentDemo.html has been removed. build 14-Mar-2024 12:08:14 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_lib/fr_orsay_lri_varna_applications_fragseq_FragSeqGUI.html has been removed. build 14-Mar-2024 12:08:14 :jalviewjsTransferUnzipLib (Thread[Execution worker for ':',5,main]) completed. Took 0.525 secs. build 14-Mar-2024 12:08:14 :jalviewjsTransferUnzipSwingJs (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:15 build 14-Mar-2024 12:08:15 > Task :jalviewjsTransferUnzipSwingJs build 14-Mar-2024 12:08:15 Caching disabled for task ':jalviewjsTransferUnzipSwingJs' because: build 14-Mar-2024 12:08:15 Build cache is disabled build 14-Mar-2024 12:08:15 Task ':jalviewjsTransferUnzipSwingJs' is not up-to-date because: build 14-Mar-2024 12:08:15 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_swingjs has been removed. build 14-Mar-2024 12:08:15 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_swingjs/___j2sflags.htm has been removed. build 14-Mar-2024 12:08:15 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_swingjs/debug.log has been removed. build 14-Mar-2024 12:08:15 :jalviewjsTransferUnzipSwingJs (Thread[Execution worker for ':',5,main]) completed. Took 1.008 secs. build 14-Mar-2024 12:08:15 :jalviewjsTransferUnzipAllLibs (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:15 build 14-Mar-2024 12:08:15 > Task :jalviewjsTransferUnzipAllLibs build 14-Mar-2024 12:08:15 Skipping task ':jalviewjsTransferUnzipAllLibs' as it has no actions. build 14-Mar-2024 12:08:15 :jalviewjsTransferUnzipAllLibs (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:08:15 :jalviewjsSyncAllLibs (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:17 build 14-Mar-2024 12:08:17 > Task :jalviewjsSyncAllLibs build 14-Mar-2024 12:08:17 Caching disabled for task ':jalviewjsSyncAllLibs' because: build 14-Mar-2024 12:08:17 Build cache is disabled build 14-Mar-2024 12:08:17 Task ':jalviewjsSyncAllLibs' is not up-to-date because: build 14-Mar-2024 12:08:17 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/swingjs/j2s/javajs/async/Assets.js has changed. build 14-Mar-2024 12:08:17 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/swingjs/j2s/javajs/async/Async.js has changed. build 14-Mar-2024 12:08:17 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/swingjs/j2s/javajs/async/AsyncColorChooser.js has changed. build 14-Mar-2024 12:08:17 :jalviewjsSyncAllLibs (Thread[Execution worker for ':',5,main]) completed. Took 1.545 secs. build 14-Mar-2024 12:08:17 :copyResources (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:17 build 14-Mar-2024 12:08:17 > Task :copyResources UP-TO-DATE build 14-Mar-2024 12:08:17 Caching disabled for task ':copyResources' because: build 14-Mar-2024 12:08:17 Build cache is disabled build 14-Mar-2024 12:08:17 Skipping task ':copyResources' as it is up-to-date. build 14-Mar-2024 12:08:17 :copyResources (Thread[Execution worker for ':',5,main]) completed. Took 0.004 secs. build 14-Mar-2024 12:08:17 :createBuildProperties (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:17 build 14-Mar-2024 12:08:17 > Task :createBuildProperties build 14-Mar-2024 12:08:17 Caching disabled for task ':createBuildProperties' because: build 14-Mar-2024 12:08:17 Build cache is disabled build 14-Mar-2024 12:08:17 Task ':createBuildProperties' is not up-to-date because: build 14-Mar-2024 12:08:17 Value of input property 'comment' has changed for task ':createBuildProperties' build 14-Mar-2024 12:08:17 Value of input property 'properties' has changed for task ':createBuildProperties' build 14-Mar-2024 12:08:17 :createBuildProperties (Thread[Execution worker for ':',5,main]) completed. Took 0.006 secs. build 14-Mar-2024 12:08:17 :jalviewjsSyncBuildProperties (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:17 build 14-Mar-2024 12:08:17 > Task :jalviewjsSyncBuildProperties build 14-Mar-2024 12:08:17 Caching disabled for task ':jalviewjsSyncBuildProperties' because: build 14-Mar-2024 12:08:17 Build cache is disabled build 14-Mar-2024 12:08:17 Task ':jalviewjsSyncBuildProperties' is not up-to-date because: build 14-Mar-2024 12:08:17 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/swingjs/j2s/.build_properties has been removed. build 14-Mar-2024 12:08:17 :jalviewjsSyncBuildProperties (Thread[Execution worker for ':',5,main]) completed. Took 0.123 secs. build 14-Mar-2024 12:08:17 :jalviewjsBuildAllCores (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:19 build 14-Mar-2024 12:08:19 > Task :jalviewjsBuildAllCores build 14-Mar-2024 12:08:19 Execution optimizations have been disabled for task ':jalviewjsBuildAllCores' to ensure correctness due to the following reasons: build 14-Mar-2024 12:08:19 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_lib/swingjs/j2s'. Reason: Task ':jalviewjsBuildAllCores' uses this output of task ':jalviewjsTransferUnzipLib' 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 14-Mar-2024 12:08:19 Invalidating VFS because task ':jalviewjsBuildAllCores' failed validation build 14-Mar-2024 12:08:19 Caching disabled for task ':jalviewjsBuildAllCores' because: build 14-Mar-2024 12:08:19 Build cache is disabled build 14-Mar-2024 12:08:19 Task ':jalviewjsBuildAllCores' is not up-to-date because: build 14-Mar-2024 12:08:19 Incremental execution has been disabled to ensure correctness. Please consult deprecation warnings for more details. build 14-Mar-2024 12:08:19 Creating core for stevesoft... build 14-Mar-2024 12:08:19 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corestevesoft.js build 14-Mar-2024 12:08:19 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corestevesoft.z.js build 14-Mar-2024 12:08:19 build 14-Mar-2024 12:08:19 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corestevesoft.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corestevesoft.z.js' build 14-Mar-2024 12:08:19 build 14-Mar-2024 12:08:19 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corestevesoft.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corestevesoft.z.js build 14-Mar-2024 12:08:19 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 14-Mar-2024 12:08:20 -- build 14-Mar-2024 12:08:20 Creating core for jvjmol... build 14-Mar-2024 12:08:20 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvjmol.js build 14-Mar-2024 12:08:20 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvjmol.z.js build 14-Mar-2024 12:08:20 build 14-Mar-2024 12:08:20 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvjmol.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvjmol.z.js' build 14-Mar-2024 12:08:20 build 14-Mar-2024 12:08:20 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvjmol.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvjmol.z.js build 14-Mar-2024 12:08:20 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 14-Mar-2024 12:08:22 -- build 14-Mar-2024 12:08:22 Creating core for jalview... build 14-Mar-2024 12:08:22 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.js build 14-Mar-2024 12:08:22 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.z.js build 14-Mar-2024 12:08:22 build 14-Mar-2024 12:08:22 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.z.js' build 14-Mar-2024 12:08:22 build 14-Mar-2024 12:08:22 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.z.js build 14-Mar-2024 12:08:22 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 14-Mar-2024 12:08:34 -- build 14-Mar-2024 12:08:34 Creating core for jvexamplefile... build 14-Mar-2024 12:08:34 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.js build 14-Mar-2024 12:08:34 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.z.js build 14-Mar-2024 12:08:34 build 14-Mar-2024 12:08:34 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.z.js' build 14-Mar-2024 12:08:34 build 14-Mar-2024 12:08:34 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.z.js build 14-Mar-2024 12:08:34 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 14-Mar-2024 12:08:36 -- build 14-Mar-2024 12:08:36 Creating core for _stevesoft... build 14-Mar-2024 12:08:36 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.js build 14-Mar-2024 12:08:36 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.z.js build 14-Mar-2024 12:08:36 build 14-Mar-2024 12:08:36 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.z.js' build 14-Mar-2024 12:08:36 build 14-Mar-2024 12:08:36 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.z.js build 14-Mar-2024 12:08:36 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 14-Mar-2024 12:08:39 -- build 14-Mar-2024 12:08:39 :jalviewjsBuildAllCores (Thread[Execution worker for ':',5,main]) completed. Took 21.584 secs. build 14-Mar-2024 12:08:39 :jalviewjsPublishCoreTemplates (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :jalviewjsPublishCoreTemplates build 14-Mar-2024 12:08:39 Caching disabled for task ':jalviewjsPublishCoreTemplates' because: build 14-Mar-2024 12:08:39 Build cache is disabled build 14-Mar-2024 12:08:39 Task ':jalviewjsPublishCoreTemplates' is not up-to-date because: build 14-Mar-2024 12:08:39 Output property '$1$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_core/JalviewJS_stevesoft.html has been removed. build 14-Mar-2024 12:08:39 Output property '$1$2' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_core/JalviewJS_jvjmol.html has been removed. build 14-Mar-2024 12:08:39 Output property '$1$3' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/tmp/site_core/JalviewJS_jalview.html has been removed. build 14-Mar-2024 12:08:39 :jalviewjsPublishCoreTemplates (Thread[Execution worker for ':',5,main]) completed. Took 0.021 secs. build 14-Mar-2024 12:08:39 :jalviewjsSyncCore (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :jalviewjsSyncCore build 14-Mar-2024 12:08:39 Caching disabled for task ':jalviewjsSyncCore' because: build 14-Mar-2024 12:08:39 Build cache is disabled build 14-Mar-2024 12:08:39 Task ':jalviewjsSyncCore' is not up-to-date because: build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/JalviewJS__stevesoft.html has been removed. build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/JalviewJS_jalview.html has been removed. build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/JalviewJS_jvexamplefile.html has been removed. build 14-Mar-2024 12:08:39 :jalviewjsSyncCore (Thread[Execution worker for ':',5,main]) completed. Took 0.195 secs. build 14-Mar-2024 12:08:39 :copyChannelResources (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :copyChannelResources build 14-Mar-2024 12:08:39 Execution optimizations have been disabled for task ':copyChannelResources' to ensure correctness due to the following reasons: build 14-Mar-2024 12:08:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-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 14-Mar-2024 12:08:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/resources/resources_build'. Reason: Task ':jalviewjsSyncBuildProperties' 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 14-Mar-2024 12:08:39 Invalidating VFS because task ':copyChannelResources' failed validation build 14-Mar-2024 12:08:39 Caching disabled for task ':copyChannelResources' because: build 14-Mar-2024 12:08:39 Build cache is disabled build 14-Mar-2024 12:08:39 Task ':copyChannelResources' is not up-to-date because: build 14-Mar-2024 12:08:39 Incremental execution has been disabled to ensure correctness. Please consult deprecation warnings for more details. build 14-Mar-2024 12:08:39 :copyChannelResources (Thread[Execution worker for ':',5,main]) completed. Took 0.015 secs. build 14-Mar-2024 12:08:39 :buildResources (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :buildResources build 14-Mar-2024 12:08:39 Skipping task ':buildResources' as it has no actions. build 14-Mar-2024 12:08:39 :buildResources (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:08:39 :jalviewjsSyncResources (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :jalviewjsSyncResources build 14-Mar-2024 12:08:39 Caching disabled for task ':jalviewjsSyncResources' because: build 14-Mar-2024 12:08:39 Build cache is disabled build 14-Mar-2024 12:08:39 Task ':jalviewjsSyncResources' is not up-to-date because: build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/swingjs/j2s/.build_properties has changed. build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/swingjs/j2s/AmbiguityCodes.dat has been removed. build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/swingjs/j2s/authors.props has been removed. build 14-Mar-2024 12:08:39 :jalviewjsSyncResources (Thread[Execution worker for ':',5,main]) completed. Took 0.166 secs. build 14-Mar-2024 12:08:39 :jalviewjsSyncSiteResources (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :jalviewjsSyncSiteResources build 14-Mar-2024 12:08:39 Caching disabled for task ':jalviewjsSyncSiteResources' because: build 14-Mar-2024 12:08:39 Build cache is disabled build 14-Mar-2024 12:08:39 Task ':jalviewjsSyncSiteResources' is not up-to-date because: build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/___j2sflags.htm has changed. build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/jalview_bin_JalviewJS2.html has changed. build 14-Mar-2024 12:08:39 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build/jalviewjs/site/_jalview_bin_JalviewJS_core.html has been removed. build 14-Mar-2024 12:08:39 :jalviewjsSyncSiteResources (Thread[Execution worker for ':',5,main]) completed. Took 0.201 secs. build 14-Mar-2024 12:08:39 :jalviewjsPrepareSite (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :jalviewjsPrepareSite build 14-Mar-2024 12:08:39 Skipping task ':jalviewjsPrepareSite' as it has no actions. build 14-Mar-2024 12:08:39 :jalviewjsPrepareSite (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:08:39 :jalviewjsBuildSite (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :jalviewjsBuildSite build 14-Mar-2024 12:08:39 Skipping task ':jalviewjsBuildSite' as it has no actions. build 14-Mar-2024 12:08:39 :jalviewjsBuildSite (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:08:39 :jalviewjs (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 > Task :jalviewjs build 14-Mar-2024 12:08:39 Skipping task ':jalviewjs' as it has no actions. build 14-Mar-2024 12:08:39 :jalviewjs (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:08:39 producer locations for task group 0 (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 producer locations for task group 0 (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:08:39 producer locations for task group 1 (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 producer locations for task group 1 (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:08:39 producer locations for task group 2 (Thread[Execution worker for ':',5,main]) started. build 14-Mar-2024 12:08:39 producer locations for task group 2 (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 Deprecated Gradle features were used in this build, making it incompatible with Gradle 8.0. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 You can use '--warning-mode all' to show the individual deprecation warnings and determine if they come from your own scripts or plugins. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 See https://docs.gradle.org/7.4.2/userguide/command_line_interface.html#sec:command_line_warnings build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 Execution optimizations have been disabled for 2 invalid unit(s) of work during this build to ensure correctness. build 14-Mar-2024 12:08:39 Please consult deprecation warnings for more details. build 14-Mar-2024 12:08:39 build 14-Mar-2024 12:08:39 BUILD SUCCESSFUL in 1m 30s build 14-Mar-2024 12:08:39 23 actionable tasks: 21 executed, 2 up-to-date simple 14-Mar-2024 12:08:39 Finished task 'JalviewJS ${bamboo.CHANNEL} release' with result: Success command 14-Mar-2024 12:08:39 Substituting variable: ${bamboo.CHANNEL} with DEVELOP-2-12 simple 14-Mar-2024 12:08:39 Starting task 'Create tar of getdown ${bamboo.CHANNEL} channel website' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' command 14-Mar-2024 12:08:39 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job #3 (JB-GDC330-JOB1-3)'\n ... running command line: \n/srv/bamboo/bamboo-home/temp/JB-GDC330-JOB1-3-ScriptBuildTask-5145676709149238060.sh\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=development/Release_2_12_Branch\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nbamboo_planRepository_1_branchDisplayName=development/Release_2_12_Branch\nbamboo_repository_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_repository_46497802_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDC330-JOB1-3\nbamboo_repository_46497802_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDC330-JOB1\nbamboo_shortPlanName=development-Release_2_12_Branch\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497802_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_buildNumber=3\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-GDC330-JOB1-3\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch\nbamboo_shortPlanKey=GDC330\nbamboo_shortJobKey=JOB1\nbamboo_repository_46497802_git_username=\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_buildTimeStamp=2024-03-14T12:02:52.882Z\nbamboo_repository_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_planRepository_previousRevision=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_repository_git_branch=development/Release_2_12_Branch\nbamboo_buildResultKey=JB-GDC330-JOB1-3\nbamboo_repository_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_name=Jalview Git\nbamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_CHANNEL=DEVELOP-2-12\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_7=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=DEVELOP-2-12 -PJAVA_VERSION=11 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GDC330 --info eclipse jalviewjsCreateJ2sSettings jalviewjs\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=DEVELOP-2-12 -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GDC330 clean getdown shadowJar\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=development/Release_2_12_Branch\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_planRepository_branchDisplayName=development/Release_2_12_Branch\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=development/Release_2_12_Branch\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_repository_46497802_git_branch=development/Release_2_12_Branch\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301203\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_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-GDC330-JOB1\nbamboo_planKey=JB-GDC330\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_planRepository_1_branchName=development/Release_2_12_Branch\n build 14-Mar-2024 12:08:39 11/ build 14-Mar-2024 12:08:39 11/digest2.txt build 14-Mar-2024 12:08:39 11/channel_launch-develop-2-12.jvl build 14-Mar-2024 12:08:39 11/channel.props build 14-Mar-2024 12:08:39 11/getdown-launcher-new.jar build 14-Mar-2024 12:08:40 11/alt/ build 14-Mar-2024 12:08:40 11/alt/log4j-core-2.17.1.jar build 14-Mar-2024 12:08:40 11/alt/slf4j-api-1.7.32.jar build 14-Mar-2024 12:08:40 11/alt/axis.jar build 14-Mar-2024 12:08:40 11/alt/httpcore-4.4.10.jar build 14-Mar-2024 12:08:40 11/alt/json-20180130.jar build 14-Mar-2024 12:08:40 11/alt/javax.activation-api-1.2.0.jar build 14-Mar-2024 12:08:40 11/alt/jaxb-runtime-2.3.2.jar build 14-Mar-2024 12:08:40 11/alt/apache-mime4j-core-0.8.3.jar build 14-Mar-2024 12:08:40 11/alt/flatlaf-extras-2.3.jar build 14-Mar-2024 12:08:40 11/alt/jaxws-api-2.3.1.jar build 14-Mar-2024 12:08:40 11/alt/quaqua-filechooser-only-8.0.jar build 14-Mar-2024 12:08:40 11/alt/saaj-impl.jar build 14-Mar-2024 12:08:40 11/alt/mail-MODULE.jar build 14-Mar-2024 12:08:40 11/alt/regex.jar build 14-Mar-2024 12:08:40 11/alt/jetty-http-9.2.10.v20150310.jar build 14-Mar-2024 12:08:40 11/alt/commons-discovery.jar build 14-Mar-2024 12:08:40 11/alt/biojava-ontology-4.1.0.jar build 14-Mar-2024 12:08:40 11/alt/jetty-io-9.2.10.v20150310.jar build 14-Mar-2024 12:08:40 11/alt/istack-commons-runtime.jar build 14-Mar-2024 12:08:40 11/alt/jersey-json-1.19.4.jar build 14-Mar-2024 12:08:40 11/alt/gmbal-api-only-MODULE.jar build 14-Mar-2024 12:08:40 11/alt/javax.xml.soap-api-1.4.0.jar build 14-Mar-2024 12:08:40 11/alt/simple-http-client-1.0-SNAPSHOT.jar build 14-Mar-2024 12:08:40 11/alt/commons-codec-1.3.jar build 14-Mar-2024 12:08:40 11/alt/jetty-server-9.2.10.v20150310.jar build 14-Mar-2024 12:08:40 11/alt/log4j-slf4j18-impl-2.17.1.jar build 14-Mar-2024 12:08:40 11/alt/commons-logging-1.1.1.jar build 14-Mar-2024 12:08:40 11/alt/groovy-all-2.4.21-indy.jar build 14-Mar-2024 12:08:40 11/alt/hmmer-client-1.0-SNAPSHOT.jar build 14-Mar-2024 12:08:40 11/alt/VARNAv3-93.jar build 14-Mar-2024 12:08:40 11/alt/slivka-client.jar build 14-Mar-2024 12:08:40 11/alt/FastInfoset.jar build 14-Mar-2024 12:08:40 11/alt/javax.annotation-api-1.3.2.jar build 14-Mar-2024 12:08:40 11/alt/javax.xml.rpc-api-1.1.2.jar build 14-Mar-2024 12:08:40 11/alt/VAqua5-patch.jar build 14-Mar-2024 12:08:40 11/alt/jsoup-1.8.1.jar build 14-Mar-2024 12:08:40 11/alt/biojava-core-4.1.0.jar build 14-Mar-2024 12:08:40 11/alt/jaxb-api-2.3.1.jar build 14-Mar-2024 12:08:40 11/alt/jalview.jar build 14-Mar-2024 12:08:41 11/alt/jersey-client-1.19.4.jar build 14-Mar-2024 12:08:41 11/alt/javax.servlet-api-4.0.1.jar build 14-Mar-2024 12:08:41 11/alt/policy-2.7.6.jar build 14-Mar-2024 12:08:41 11/alt/xercesImpl.jar build 14-Mar-2024 12:08:41 11/alt/json_simple-1.1.jar build 14-Mar-2024 12:08:41 11/alt/apache-mime4j-dom-0.8.3.jar build 14-Mar-2024 12:08:41 11/alt/jetty-util-9.2.10.v20150310.jar build 14-Mar-2024 12:08:41 11/alt/jersey-core-1.19.4.jar build 14-Mar-2024 12:08:41 11/alt/txw2-2.3.2.jar build 14-Mar-2024 12:08:41 11/alt/jswingreader-0.3.jar build 14-Mar-2024 12:08:41 11/alt/intervalstore-v1.1.jar build 14-Mar-2024 12:08:41 11/alt/getdown-core.jar build 14-Mar-2024 12:08:41 11/alt/jsr311-api-1.1.1.jar build 14-Mar-2024 12:08:41 11/alt/jaxws-rt-java9.jar build 14-Mar-2024 12:08:41 11/alt/vamsas-client.jar build 14-Mar-2024 12:08:41 11/alt/JGoogleAnalytics_0.3.jar build 14-Mar-2024 12:08:41 11/alt/jfreesvg-2.1.jar build 14-Mar-2024 12:08:41 11/alt/htsjdk-2.23.0.jar build 14-Mar-2024 12:08:41 11/alt/stax-ex-1.8.1.jar build 14-Mar-2024 12:08:41 11/alt/build_properties build 14-Mar-2024 12:08:41 11/alt/stax2-api-4.2.jar build 14-Mar-2024 12:08:41 11/alt/log4j-api-2.17.1.jar build 14-Mar-2024 12:08:41 11/alt/libquaqua-8.0.jnilib.jar build 14-Mar-2024 12:08:41 11/alt/mimepull-1.9.11.jar build 14-Mar-2024 12:08:41 11/alt/jpred-client-1.0-SNAPSHOT.jar build 14-Mar-2024 12:08:41 11/alt/httpmime-4.5.6.jar build 14-Mar-2024 12:08:41 11/alt/flatlaf-2.3.jar build 14-Mar-2024 12:08:41 11/alt/jhall.jar build 14-Mar-2024 12:08:41 11/alt/jabaws-min-client-NO_LOG4J-2.2.1.jar build 14-Mar-2024 12:08:41 11/alt/libquaqua64-8.0.jnilib.jar build 14-Mar-2024 12:08:41 11/alt/miglayout-4.0-swing.jar build 14-Mar-2024 12:08:41 11/alt/streambuffer-1.5.7.jar build 14-Mar-2024 12:08:41 11/alt/httpclient-4.5.6.jar build 14-Mar-2024 12:08:41 11/alt/javax.jws-api-1.1.jar build 14-Mar-2024 12:08:41 11/alt/Jmol-15.1.3.jar build 14-Mar-2024 12:08:42 11/alt/wsdl4j-1.6.3.jar build 14-Mar-2024 12:08:42 11/resource/ build 14-Mar-2024 12:08:42 11/resource/jalview_develop_getdown_background_initialising.png build 14-Mar-2024 12:08:42 11/resource/jalview_develop_getdown_background_error.png build 14-Mar-2024 12:08:42 11/resource/jalview_develop_getdown_background.png build 14-Mar-2024 12:08:42 11/resource/jalview_develop_getdown_progress_bar.png build 14-Mar-2024 12:08:42 11/getdown-launcher.jar build 14-Mar-2024 12:08:42 11/getdown.txt build 14-Mar-2024 12:08:42 11/bin/ build 14-Mar-2024 12:08:42 11/bin/jalview.ps1 build 14-Mar-2024 12:08:42 11/bin/jalview.bat build 14-Mar-2024 12:08:42 11/bin/jalview.sh build 14-Mar-2024 12:08:42 11/digest.txt simple 14-Mar-2024 12:08:42 Finished task 'Create tar of getdown ${bamboo.CHANNEL} channel website' with result: Success command 14-Mar-2024 12:08:42 Substituting variable: ${bamboo.CHANNEL} with DEVELOP-2-12 simple 14-Mar-2024 12:08:42 Starting task 'Create tar of DEVELOP channel executable jar' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' command 14-Mar-2024 12:08:42 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job #3 (JB-GDC330-JOB1-3)'\n ... running command line: \n/srv/bamboo/bamboo-home/temp/JB-GDC330-JOB1-3-ScriptBuildTask-2109295415618763705.sh\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=development/Release_2_12_Branch\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nbamboo_planRepository_1_branchDisplayName=development/Release_2_12_Branch\nbamboo_repository_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_repository_46497802_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDC330-JOB1-3\nbamboo_repository_46497802_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDC330-JOB1\nbamboo_shortPlanName=development-Release_2_12_Branch\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497802_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_buildNumber=3\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-GDC330-JOB1-3\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch\nbamboo_shortPlanKey=GDC330\nbamboo_shortJobKey=JOB1\nbamboo_repository_46497802_git_username=\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_buildTimeStamp=2024-03-14T12:02:52.882Z\nbamboo_repository_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_planRepository_previousRevision=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_build_commandline_com_atlassian_bamboo_plugins_scripttask_task_builder_script_4=/srv/bamboo/bamboo-home/temp/JB-GDC330-JOB1-3-ScriptBuildTask-5145676709149238060.sh\nbamboo_repository_git_branch=development/Release_2_12_Branch\nbamboo_buildResultKey=JB-GDC330-JOB1-3\nbamboo_repository_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_name=Jalview Git\nbamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_CHANNEL=DEVELOP-2-12\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_7=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=DEVELOP-2-12 -PJAVA_VERSION=11 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GDC330 --info eclipse jalviewjsCreateJ2sSettings jalviewjs\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=DEVELOP-2-12 -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GDC330 clean getdown shadowJar\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=development/Release_2_12_Branch\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_planRepository_branchDisplayName=development/Release_2_12_Branch\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=development/Release_2_12_Branch\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_repository_46497802_git_branch=development/Release_2_12_Branch\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301203\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_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-GDC330-JOB1\nbamboo_planKey=JB-GDC330\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_planRepository_1_branchName=development/Release_2_12_Branch\n build 14-Mar-2024 12:08:42 /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1/build build 14-Mar-2024 12:08:42 executable_jar/ build 14-Mar-2024 12:08:42 executable_jar/jalview-all-2.12.0-d2-12-20240314-j11.jar.sha256 build 14-Mar-2024 12:08:42 executable_jar/jalview-all-2.12.0-d2-12-20240314-j11.jar simple 14-Mar-2024 12:08:43 Finished task 'Create tar of DEVELOP channel executable jar' with result: Success command 14-Mar-2024 12:08:43 Substituting variable: ${bamboo.CHANNEL} with DEVELOP-2-12 simple 14-Mar-2024 12:08:43 Starting task 'create tar of JalviewJS site' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' command 14-Mar-2024 12:08:43 Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Channel - development-Release_2_12_Branch - Default Job #3 (JB-GDC330-JOB1-3)'\n ... running command line: \n/srv/bamboo/bamboo-home/temp/JB-GDC330-JOB1-3-ScriptBuildTask-4198162997854194827.sh\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=development/Release_2_12_Branch\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nbamboo_planRepository_1_branchDisplayName=development/Release_2_12_Branch\nbamboo_repository_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_repository_46497802_revision_number=ce63feae60026b5815c18b133447d0f265d4cf8a\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDC330-JOB1-3\nbamboo_repository_46497802_branch_name=development/Release_2_12_Branch\nbamboo_repository_46497802_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDC330-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GDC330-JOB1\nbamboo_shortPlanName=development-Release_2_12_Branch\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497802_previous_revision_number=b8c0c4d78deccb7901d905a248aba47ea1c87a6a\nbamboo_buildNumber=3\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-GDC330-JOB1-3\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown DEVELOP Channel - 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build 14-Mar-2024 12:08:43 total 376 build 14-Mar-2024 12:08:43 drwxr-xr-x 2 bamboo bamboo 4096 Mar 14 12:08 _ build 14-Mar-2024 12:08:43 -rw-r--r-- 1 bamboo bamboo 150 Mar 14 12:08 AmbiguityCodes.dat build 14-Mar-2024 12:08:43 -rw-r--r-- 1 bamboo bamboo 474 Mar 14 12:08 authors.props build 14-Mar-2024 12:08:43 -rw-r--r-- 1 bamboo bamboo 870 Mar 14 12:08 channel.props build 14-Mar-2024 12:08:43 drwxr-xr-x 5 bamboo bamboo 4096 Mar 14 12:08 com build 14-Mar-2024 12:08:43 drwxr-xr-x 2 bamboo bamboo 4096 Mar 14 12:08 core build 14-Mar-2024 12:08:43 drwxr-xr-x 2 bamboo bamboo 4096 Mar 14 12:08 default_images build 14-Mar-2024 12:08:43 drwxr-xr-x 2 bamboo bamboo 4096 Mar 14 12:08 _ES6 build 14-Mar-2024 12:08:43 drwxr-xr-x 4 bamboo bamboo 4096 Mar 14 12:08 ext build 14-Mar-2024 12:08:43 drwxr-xr-x 3 bamboo bamboo 4096 Mar 14 12:08 fr build 14-Mar-2024 12:08:43 drwxr-xr-x 2 bamboo bamboo 4096 Mar 14 12:08 fts build 14-Mar-2024 12:08:43 -rw-r--r-- 1 bamboo bamboo 15295 Mar 14 12:08 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