Build: #1 was successful
Job: Default Job was successful
Build log
The build generated 252 lines of output. Download or view full build log
| 29-Oct-2021 16:46:13 | Build Jalview Builds - Getdown Plan Channel - feature-JAL-3851_rest_api_for_genome_browser - Default Job #1 (JB-GPC270-JOB1-1) started building on agent Default Agent |
| 29-Oct-2021 16:46:13 | |
| 29-Oct-2021 16:46:13 | Build working directory is /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1 |
| 29-Oct-2021 16:46:13 | Executing build Jalview Builds - Getdown Plan Channel - feature-JAL-3851_rest_api_for_genome_browser - Default Job #1 (JB-GPC270-JOB1-1) |
| 29-Oct-2021 16:46:13 | Starting task 'Checkout Default Repository' of type 'com.atlassian.bamboo.plugins.vcs:task.vcs.checkout' |
| 29-Oct-2021 16:46:13 | Checking out into /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1 |
| 29-Oct-2021 16:46:13 | Updating source code to revision: 5b6a0829691db987481f5b365799842a1935ab0a |
| 29-Oct-2021 16:46:13 | Fetching 'refs/heads/feature/JAL-3851_rest_api_for_genome_browser' from 'http://source.jalview.org/git/jalview.git'. |
| 29-Oct-2021 16:46:13 | Checking out revision 5b6a0829691db987481f5b365799842a1935ab0a. |
| 29-Oct-2021 16:46:13 | Creating local git repository in '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1/.git'. |
| 29-Oct-2021 16:46:13 | Cloning into '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1'... |
| 29-Oct-2021 16:46:13 | done. |
| 29-Oct-2021 16:46:27 | Branch feature/JAL-3851_rest_api_for_genome_browser set up to track remote branch feature/JAL-3851_rest_api_for_genome_browser from origin. |
| 29-Oct-2021 16:46:27 | Switched to a new branch 'feature/JAL-3851_rest_api_for_genome_browser' |
| 29-Oct-2021 16:46:27 | Updated source code to revision: 5b6a0829691db987481f5b365799842a1935ab0a |
| 29-Oct-2021 16:46:27 | Finished task 'Checkout Default Repository' with result: Success |
| 29-Oct-2021 16:46:27 | Running pre-build action: VCS Version Collector |
| 29-Oct-2021 16:46:27 | Running pre-build action: Artifactory Release Staging |
| 29-Oct-2021 16:46:27 | Substituting variable: ${bamboo.planKey} with JB-GPC270 |
| 29-Oct-2021 16:46:27 | Starting task 'Jalview distribution for Java 11' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' |
| 29-Oct-2021 16:46:27 | Bamboo Artifactory Plugin version: 2.6.2 |
| 29-Oct-2021 16:46:27 | Beginning to execute external process for build 'Jalview Builds - Getdown Plan Channel - feature-JAL-3851_rest_api_for_genome_browser - Default Job #1 (JB-GPC270-JOB1-1)' ... running command line: /home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=BUILD -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GPC270 clean makeDist shadowJar getdown ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1 ... using extra environment variables: bamboo_planRepository_1_branch=feature/JAL-3851_rest_api_for_genome_browser bamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr CATALINA_PID=/home/bamboo/latest/work/bamboo.pid bamboo_planRepository_1_branchDisplayName=feature/JAL-3851_rest_api_for_genome_browser bamboo_repository_revision_number=5b6a0829691db987481f5b365799842a1935ab0a bamboo_resultsUrl=https://builds.jalview.org/browse/JB-GPC270-JOB1-1 JAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048 bamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1 bamboo_planRepository_1_name=Jalview Git bamboo_buildKey=JB-GPC270-JOB1 bamboo_shortPlanName=feature-JAL-3851_rest_api_for_genome_browser bamboo_planRepository_name=Jalview Git LOGNAME=bamboo bamboo_buildNumber=1 PWD=/ bamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse bamboo_shortJobName=Default Job bamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GPC270-JOB1-1 bamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git SHELL=/bin/bash bamboo_agentId=196609 bamboo_planName=Jalview Builds - Getdown Plan Channel - feature-JAL-3851_rest_api_for_genome_browser bamboo_shortPlanKey=GPC270 bamboo_shortJobKey=JOB1 bamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk bamboo_planRepository_revision=5b6a0829691db987481f5b365799842a1935ab0a bamboo_buildTimeStamp=2021-10-29T16:46:13.297+01:00 bamboo_repository_27918466_git_branch=feature/JAL-3851_rest_api_for_genome_browser bamboo_repository_git_branch=feature/JAL-3851_rest_api_for_genome_browser bamboo_buildResultKey=JB-GPC270-JOB1-1 bamboo_repository_branch_name=feature/JAL-3851_rest_api_for_genome_browser bamboo_buildPlanName=Jalview Builds - Getdown Plan Channel - feature-JAL-3851_rest_api_for_genome_browser - Default Job bamboo_repository_27918466_name=Jalview Git bamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11 bamboo_planRepository_1_revision=5b6a0829691db987481f5b365799842a1935ab0a SHLVL=1 bamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant bamboo_repository_name=Jalview Git JAVA_HOME=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/ bamboo_dependenciesDisabled=false LANG=en_GB.UTF-8 bamboo_buildFailed=false bamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk bamboo_planRepository_branch=feature/JAL-3851_rest_api_for_genome_browser bamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609 bamboo_capability_system_git_executable=/bin/git bamboo_repository_git_username= bamboo_planRepository_branchDisplayName=feature/JAL-3851_rest_api_for_genome_browser bamboo_planRepository_1_type=gitv2 bamboo_planRepository_branchName=feature/JAL-3851_rest_api_for_genome_browser _=/usr/bin/java bamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11 bamboo_capability_system_builderivy_Ivy=/usr bamboo_repository_27918466_revision_number=5b6a0829691db987481f5b365799842a1935ab0a bamboo_plan_storageTag=plan-27623683 bamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle bamboo_repository_27918466_branch_name=feature/JAL-3851_rest_api_for_genome_browser bamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache bamboo_planRepository_1_username= bamboo_repository_27918466_git_username= bamboo_planRepository_type=gitv2 USER=bamboo bamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache bamboo_ManualBuildTriggerReason_userName=Soares bamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_capability_system_builder_ant_Ant=/usr/share/ant bamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven bamboo_tmp_directory=/srv/bamboo/bamboo-home/temp bamboo_repository_27918466_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1 bamboo_planKey=JB-GPC270 bamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_planRepository_username= HOME=/home/bamboo bamboo_planRepository_1_branchName=feature/JAL-3851_rest_api_for_genome_browser PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin |
| 29-Oct-2021 16:46:29 | |
| 29-Oct-2021 16:46:29 | > Configure project : |
| 29-Oct-2021 16:46:29 | Using properties from file './utils/channels/default/channel_gradle.properties' |
| 29-Oct-2021 16:46:29 | HEADLESS BUILD |
| 29-Oct-2021 16:46:29 | J2S ENABLED |
| 29-Oct-2021 16:46:29 | Using a BUILD profile. |
| 29-Oct-2021 16:46:29 | eclipseDir exists |
| 29-Oct-2021 16:46:30 | |
| 29-Oct-2021 16:46:30 | > Task :clean |
| 29-Oct-2021 16:46:30 | > Task :cleanPackageDir UP-TO-DATE |
| 29-Oct-2021 16:46:30 | > Task :copyHelp |
| 29-Oct-2021 16:46:32 | > Task :buildIndices |
| 29-Oct-2021 16:46:32 | > Task :copyResources |
| 29-Oct-2021 16:46:32 | > Task :copyChannelResources |
| 29-Oct-2021 16:46:32 | > Task :createBuildProperties |
| 29-Oct-2021 16:46:32 | > Task :buildResources |
| 29-Oct-2021 16:46:32 | > Task :copyDocs |
| 29-Oct-2021 16:46:32 | |
| 29-Oct-2021 16:46:32 | > Task :convertMdFiles |
| 29-Oct-2021 16:46:32 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1/build/resources/doc_build/doc/releaseprocess.html |
| 29-Oct-2021 16:46:32 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1/build/resources/doc_build/doc/building.html |
| 29-Oct-2021 16:46:32 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1/build/resources/doc_build/doc/api_specification.html |
| 29-Oct-2021 16:46:32 | |
| 29-Oct-2021 16:46:32 | > Task :prepare |
| 29-Oct-2021 16:46:34 | |
| 29-Oct-2021 16:46:34 | > Task :compileJava |
| 29-Oct-2021 16:46:34 | Setting target compatibility to 11 |
| 29-Oct-2021 16:46:39 | Note: Some input files use or override a deprecated API. |
| 29-Oct-2021 16:46:39 | Note: Recompile with -Xlint:deprecation for details. |
| 29-Oct-2021 16:46:39 | Note: Some input files use unchecked or unsafe operations. |
| 29-Oct-2021 16:46:39 | Note: Recompile with -Xlint:unchecked for details. |
| 29-Oct-2021 16:46:44 | |
| 29-Oct-2021 16:46:44 | > Task :processResources |
| 29-Oct-2021 16:46:44 | > Task :classes |
| 29-Oct-2021 16:46:47 | > Task :compileLinkCheck |
| 29-Oct-2021 16:46:48 | |
| 29-Oct-2021 16:46:48 | > Task :linkCheck |
| 29-Oct-2021 16:46:48 | Checking help file links |
| 29-Oct-2021 16:46:48 | |
| 29-Oct-2021 16:46:48 | Results: |
| 29-Oct-2021 16:46:48 | 138 distinct help targets |
| 29-Oct-2021 16:46:48 | 138 help mappings |
| 29-Oct-2021 16:46:48 | 0 invalid targets |
| 29-Oct-2021 16:46:48 | 24 unused targets |
| 29-Oct-2021 16:46:48 | uniprotfetcher: html/features/uniprotsequencefetcher.html |
| 29-Oct-2021 16:46:48 | overviewprefs: html/features/preferences.html#overview |
| 29-Oct-2021 16:46:48 | cdnafeatures: html/features/codingfeatures.html |
| 29-Oct-2021 16:46:48 | ensemblfetch: html/features/ensemblsequencefetcher.html |
| 29-Oct-2021 16:46:48 | io.modellerpir: html/io/modellerpir.html |
| 29-Oct-2021 16:46:48 | pdbmcviewer: html/features/pdbviewer.html |
| 29-Oct-2021 16:46:48 | groovy.colours: html/features/groovy.html#groovyColours |
| 29-Oct-2021 16:46:48 | seqmappings: html/features/seqmappings.html |
| 29-Oct-2021 16:46:48 | uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts |
| 29-Oct-2021 16:46:48 | splitframe.mirrorfonts: html/features/splitView.html#mirror |
| 29-Oct-2021 16:46:48 | subtMatrices.pam250: html/calculations/scorematrices.html#pam250 |
| 29-Oct-2021 16:46:48 | search: html/features/search.html |
| 29-Oct-2021 16:46:48 | viewingpdbs.reps: html/features/viewingpdbs.html#viewreps |
| 29-Oct-2021 16:46:48 | alformats: html/io/fileformats.html |
| 29-Oct-2021 16:46:48 | strucprefs: html/features/preferences.html#structure |
| 29-Oct-2021 16:46:48 | siftsmapping: html/features/siftsmapping.html |
| 29-Oct-2021 16:46:48 | chimera.annotxfer: html/features/chimera.html#annotxfer |
| 29-Oct-2021 16:46:48 | pdbfts: html/features/pdbsequencefetcher.html#pdbfts |
| 29-Oct-2021 16:46:48 | newkeys: html/features/newkeystrokes.html |
| 29-Oct-2021 16:46:48 | seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature |
| 29-Oct-2021 16:46:48 | jalarchive: html/features/jalarchive.html |
| 29-Oct-2021 16:46:48 | newsreader: html/webServices/newsreader.html |
| 29-Oct-2021 16:46:48 | popMenuAddref: html/menus/popupMenu.html#addrefannot |
| 29-Oct-2021 16:46:48 | overview: html/features/overview.html |
| 29-Oct-2021 16:46:48 | 0 invalid map urls |
| 29-Oct-2021 16:46:48 | 0 invalid image attributes |
| 29-Oct-2021 16:46:48 | 388 internal href links (74 with anchors) |
| 29-Oct-2021 16:46:48 | 0 invalid internal href links |
| 29-Oct-2021 16:46:48 | 0 invalid internal anchor links |
| 29-Oct-2021 16:46:48 | 87 external href links |
| 29-Oct-2021 16:46:48 | External links not verified as internet not available |
| 29-Oct-2021 16:46:48 | *** Success *** |
| 29-Oct-2021 16:46:49 | |
| 29-Oct-2021 16:46:49 | > Task :jar |
| 29-Oct-2021 16:46:49 | > Task :syncJars |
| 29-Oct-2021 16:46:49 | > Task :makeDist |
| 29-Oct-2021 16:46:58 | > Task :shadowJar |
| 29-Oct-2021 16:46:58 | > Task :getdownWebsite |
| 29-Oct-2021 16:47:00 | |
| 29-Oct-2021 16:47:00 | > Task :getdownDigest |
| 29-Oct-2021 16:47:00 | Generating digest file './getdown/website/11/digest.txt'... |
| 29-Oct-2021 16:47:00 | Generating digest file './getdown/website/11/digest2.txt'... |
| 29-Oct-2021 16:47:00 | |
| 29-Oct-2021 16:47:00 | > Task :getdown |
| 29-Oct-2021 16:47:00 | |
| 29-Oct-2021 16:47:00 | Deprecated Gradle features were used in this build, making it incompatible with Gradle 7.0. |
| 29-Oct-2021 16:47:00 | Use '--warning-mode all' to show the individual deprecation warnings. |
| 29-Oct-2021 16:47:00 | See https://docs.gradle.org/6.5.1/userguide/command_line_interface.html#sec:command_line_warnings |
| 29-Oct-2021 16:47:00 | |
| 29-Oct-2021 16:47:00 | BUILD SUCCESSFUL in 32s |
| 29-Oct-2021 16:47:00 | 19 actionable tasks: 18 executed, 1 up-to-date |
| 29-Oct-2021 16:47:00 | 2021/10/29 16:46:58:932 WARNING Starting without install4j classes |
| 29-Oct-2021 16:47:00 | 2021/10/29 16:46:59:669 WARNING Starting without install4j classes |
| 29-Oct-2021 16:47:00 | Finished task 'Jalview distribution for Java 11' with result: Success |
| 29-Oct-2021 16:47:00 | Substituting variable: ${bamboo.planKey} with JB-GPC270 |
| 29-Oct-2021 16:47:00 | Starting task 'Jalview distribution for Java 8' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' |
| 29-Oct-2021 16:47:00 | Bamboo Artifactory Plugin version: 2.6.2 |
| 29-Oct-2021 16:47:00 | Beginning to execute external process for build 'Jalview Builds - Getdown Plan Channel - feature-JAL-3851_rest_api_for_genome_browser - Default Job #1 (JB-GPC270-JOB1-1)' ... running command line: /home/bamboo/buildtools/gradle/bin/gradle -x test -x clean -PCHANNEL=BUILD -PJAVA_VERSION=1.8 -Pbamboo_planKey=JB-GPC270 shadowJar getdown ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1 ... using extra environment variables: bamboo_planRepository_1_branch=feature/JAL-3851_rest_api_for_genome_browser bamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr CATALINA_PID=/home/bamboo/latest/work/bamboo.pid bamboo_planRepository_1_branchDisplayName=feature/JAL-3851_rest_api_for_genome_browser bamboo_repository_revision_number=5b6a0829691db987481f5b365799842a1935ab0a bamboo_resultsUrl=https://builds.jalview.org/browse/JB-GPC270-JOB1-1 JAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048 bamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1 bamboo_planRepository_1_name=Jalview Git bamboo_buildKey=JB-GPC270-JOB1 bamboo_shortPlanName=feature-JAL-3851_rest_api_for_genome_browser bamboo_planRepository_name=Jalview Git LOGNAME=bamboo bamboo_buildNumber=1 PWD=/ bamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse bamboo_shortJobName=Default Job bamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GPC270-JOB1-1 bamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git SHELL=/bin/bash bamboo_agentId=196609 bamboo_planName=Jalview Builds - Getdown Plan Channel - feature-JAL-3851_rest_api_for_genome_browser bamboo_shortPlanKey=GPC270 bamboo_shortJobKey=JOB1 bamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk bamboo_planRepository_revision=5b6a0829691db987481f5b365799842a1935ab0a bamboo_buildTimeStamp=2021-10-29T16:46:13.297+01:00 bamboo_repository_27918466_git_branch=feature/JAL-3851_rest_api_for_genome_browser bamboo_repository_git_branch=feature/JAL-3851_rest_api_for_genome_browser bamboo_buildResultKey=JB-GPC270-JOB1-1 bamboo_repository_branch_name=feature/JAL-3851_rest_api_for_genome_browser bamboo_buildPlanName=Jalview Builds - Getdown Plan Channel - feature-JAL-3851_rest_api_for_genome_browser - Default Job bamboo_repository_27918466_name=Jalview Git bamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11 bamboo_planRepository_1_revision=5b6a0829691db987481f5b365799842a1935ab0a SHLVL=1 bamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant bamboo_repository_name=Jalview Git bamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_2=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=BUILD -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GPC270 clean makeDist shadowJar getdown JAVA_HOME=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/ bamboo_dependenciesDisabled=false LANG=en_GB.UTF-8 bamboo_buildFailed=false bamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk bamboo_planRepository_branch=feature/JAL-3851_rest_api_for_genome_browser bamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609 bamboo_capability_system_git_executable=/bin/git bamboo_repository_git_username= bamboo_planRepository_branchDisplayName=feature/JAL-3851_rest_api_for_genome_browser bamboo_planRepository_1_type=gitv2 bamboo_planRepository_branchName=feature/JAL-3851_rest_api_for_genome_browser _=/usr/bin/java bamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11 bamboo_capability_system_builderivy_Ivy=/usr bamboo_repository_27918466_revision_number=5b6a0829691db987481f5b365799842a1935ab0a bamboo_plan_storageTag=plan-27623683 bamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle bamboo_repository_27918466_branch_name=feature/JAL-3851_rest_api_for_genome_browser bamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache bamboo_planRepository_1_username= bamboo_repository_27918466_git_username= bamboo_planRepository_type=gitv2 USER=bamboo bamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache bamboo_ManualBuildTriggerReason_userName=Soares bamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_capability_system_builder_ant_Ant=/usr/share/ant bamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven bamboo_tmp_directory=/srv/bamboo/bamboo-home/temp bamboo_repository_27918466_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1 bamboo_planKey=JB-GPC270 bamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_planRepository_username= HOME=/home/bamboo bamboo_planRepository_1_branchName=feature/JAL-3851_rest_api_for_genome_browser PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin |
| 29-Oct-2021 16:47:02 | |
| 29-Oct-2021 16:47:02 | > Configure project : |
| 29-Oct-2021 16:47:02 | Using properties from file './utils/channels/default/channel_gradle.properties' |
| 29-Oct-2021 16:47:02 | HEADLESS BUILD |
| 29-Oct-2021 16:47:02 | J2S ENABLED |
| 29-Oct-2021 16:47:02 | Using a BUILD profile. |
| 29-Oct-2021 16:47:02 | eclipseDir exists |
| 29-Oct-2021 16:47:02 | |
| 29-Oct-2021 16:47:02 | > Task :copyHelp UP-TO-DATE |
| 29-Oct-2021 16:47:04 | > Task :buildIndices |
| 29-Oct-2021 16:47:04 | > Task :copyResources UP-TO-DATE |
| 29-Oct-2021 16:47:04 | > Task :copyChannelResources UP-TO-DATE |
| 29-Oct-2021 16:47:04 | > Task :createBuildProperties |
| 29-Oct-2021 16:47:04 | > Task :buildResources |
| 29-Oct-2021 16:47:04 | > Task :copyDocs |
| 29-Oct-2021 16:47:04 | |
| 29-Oct-2021 16:47:04 | > Task :convertMdFiles |
| 29-Oct-2021 16:47:04 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1/build/resources/doc_build/doc/releaseprocess.html |
| 29-Oct-2021 16:47:04 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1/build/resources/doc_build/doc/building.html |
| 29-Oct-2021 16:47:04 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1/build/resources/doc_build/doc/api_specification.html |
| 29-Oct-2021 16:47:04 | |
| 29-Oct-2021 16:47:04 | > Task :prepare |
| 29-Oct-2021 16:47:06 | |
| 29-Oct-2021 16:47:06 | > Task :compileJava |
| 29-Oct-2021 16:47:06 | Setting target compatibility to 1.8 |
| 29-Oct-2021 16:47:14 | Note: Some input files use or override a deprecated API. |
| 29-Oct-2021 16:47:14 | Note: Recompile with -Xlint:deprecation for details. |
| 29-Oct-2021 16:47:14 | Note: Some input files use unchecked or unsafe operations. |
| 29-Oct-2021 16:47:14 | Note: Recompile with -Xlint:unchecked for details. |
| 29-Oct-2021 16:47:15 | |
| 29-Oct-2021 16:47:15 | > Task :processResources |
| 29-Oct-2021 16:47:15 | > Task :classes |
| 29-Oct-2021 16:47:15 | > Task :cleanPackageDir |
| 29-Oct-2021 16:47:18 | > Task :compileLinkCheck |
| 29-Oct-2021 16:47:19 | |
| 29-Oct-2021 16:47:19 | > Task :linkCheck |
| 29-Oct-2021 16:47:19 | Checking help file links |
| 29-Oct-2021 16:47:19 | |
| 29-Oct-2021 16:47:19 | Results: |
| 29-Oct-2021 16:47:19 | 138 distinct help targets |
| 29-Oct-2021 16:47:19 | 138 help mappings |
| 29-Oct-2021 16:47:19 | 0 invalid targets |
| 29-Oct-2021 16:47:19 | 24 unused targets |
| 29-Oct-2021 16:47:19 | uniprotfetcher: html/features/uniprotsequencefetcher.html |
| 29-Oct-2021 16:47:19 | overviewprefs: html/features/preferences.html#overview |
| 29-Oct-2021 16:47:19 | cdnafeatures: html/features/codingfeatures.html |
| 29-Oct-2021 16:47:19 | ensemblfetch: html/features/ensemblsequencefetcher.html |
| 29-Oct-2021 16:47:19 | io.modellerpir: html/io/modellerpir.html |
| 29-Oct-2021 16:47:19 | pdbmcviewer: html/features/pdbviewer.html |
| 29-Oct-2021 16:47:19 | groovy.colours: html/features/groovy.html#groovyColours |
| 29-Oct-2021 16:47:19 | seqmappings: html/features/seqmappings.html |
| 29-Oct-2021 16:47:19 | uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts |
| 29-Oct-2021 16:47:19 | splitframe.mirrorfonts: html/features/splitView.html#mirror |
| 29-Oct-2021 16:47:19 | subtMatrices.pam250: html/calculations/scorematrices.html#pam250 |
| 29-Oct-2021 16:47:19 | search: html/features/search.html |
| 29-Oct-2021 16:47:19 | viewingpdbs.reps: html/features/viewingpdbs.html#viewreps |
| 29-Oct-2021 16:47:19 | alformats: html/io/fileformats.html |
| 29-Oct-2021 16:47:19 | strucprefs: html/features/preferences.html#structure |
| 29-Oct-2021 16:47:19 | siftsmapping: html/features/siftsmapping.html |
| 29-Oct-2021 16:47:19 | chimera.annotxfer: html/features/chimera.html#annotxfer |
| 29-Oct-2021 16:47:19 | pdbfts: html/features/pdbsequencefetcher.html#pdbfts |
| 29-Oct-2021 16:47:19 | newkeys: html/features/newkeystrokes.html |
| 29-Oct-2021 16:47:19 | seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature |
| 29-Oct-2021 16:47:19 | jalarchive: html/features/jalarchive.html |
| 29-Oct-2021 16:47:19 | newsreader: html/webServices/newsreader.html |
| 29-Oct-2021 16:47:19 | popMenuAddref: html/menus/popupMenu.html#addrefannot |
| 29-Oct-2021 16:47:19 | overview: html/features/overview.html |
| 29-Oct-2021 16:47:19 | 0 invalid map urls |
| 29-Oct-2021 16:47:19 | 0 invalid image attributes |
| 29-Oct-2021 16:47:19 | 388 internal href links (74 with anchors) |
| 29-Oct-2021 16:47:19 | 0 invalid internal href links |
| 29-Oct-2021 16:47:19 | 0 invalid internal anchor links |
| 29-Oct-2021 16:47:19 | 87 external href links |
| 29-Oct-2021 16:47:19 | External links not verified as internet not available |
| 29-Oct-2021 16:47:19 | *** Success *** |
| 29-Oct-2021 16:47:20 | |
| 29-Oct-2021 16:47:20 | > Task :jar |
| 29-Oct-2021 16:47:20 | > Task :syncJars |
| 29-Oct-2021 16:47:20 | > Task :makeDist |
| 29-Oct-2021 16:47:28 | > Task :shadowJar |
| 29-Oct-2021 16:47:28 | > Task :getdownWebsite |
| 29-Oct-2021 16:47:30 | |
| 29-Oct-2021 16:47:30 | > Task :getdownDigest |
| 29-Oct-2021 16:47:30 | Generating digest file './getdown/website/1.8/digest.txt'... |
| 29-Oct-2021 16:47:30 | Generating digest file './getdown/website/1.8/digest2.txt'... |
| 29-Oct-2021 16:47:30 | |
| 29-Oct-2021 16:47:30 | > Task :getdown |
| 29-Oct-2021 16:47:30 | |
| 29-Oct-2021 16:47:30 | Deprecated Gradle features were used in this build, making it incompatible with Gradle 7.0. |
| 29-Oct-2021 16:47:30 | Use '--warning-mode all' to show the individual deprecation warnings. |
| 29-Oct-2021 16:47:30 | See https://docs.gradle.org/6.5.1/userguide/command_line_interface.html#sec:command_line_warnings |
| 29-Oct-2021 16:47:30 | |
| 29-Oct-2021 16:47:30 | BUILD SUCCESSFUL in 29s |
| 29-Oct-2021 16:47:30 | 18 actionable tasks: 15 executed, 3 up-to-date |
| 29-Oct-2021 16:47:30 | 2021/10/29 16:47:28:661 WARNING Starting without install4j classes |
| 29-Oct-2021 16:47:30 | 2021/10/29 16:47:29:698 WARNING Starting without install4j classes |
| 29-Oct-2021 16:47:30 | Finished task 'Jalview distribution for Java 8' with result: Success |
| 29-Oct-2021 16:47:30 | Skipping execution of task 'Create JVL files from getdown.txt' as it is disabled |
| 29-Oct-2021 16:47:30 | Running post build plugin 'NCover Results Collector' |
| 29-Oct-2021 16:47:30 | Running post build plugin 'Artifact Copier' |
| 29-Oct-2021 16:47:30 | Publishing an artifact: Jalview executables |
| 29-Oct-2021 16:47:30 | Finished publishing of artifact Shared artifact: [Jalview executables], pattern: [**/*] anchored at: [build/libs] in 230.7 ms |
| 29-Oct-2021 16:47:30 | Publishing an artifact: install4j installers |
| 29-Oct-2021 16:47:30 | Unable to publish artifact [install4j installers]: the source directory /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GPC270-JOB1/build/install4j does not exist. |
| 29-Oct-2021 16:47:30 | The artifact hasn't been successfully published after 213.6 μs |
| 29-Oct-2021 16:47:30 | Publishing an artifact: getdown-channel |
| 29-Oct-2021 16:47:31 | Finished publishing of artifact Shared artifact: [getdown-channel], pattern: [**/*] anchored at: [getdown/website] in 307.5 ms |
| 29-Oct-2021 16:47:31 | Publishing an artifact: Jalview getdown launcher |
| 29-Oct-2021 16:47:31 | Finished publishing of artifact Shared artifact: [Jalview getdown launcher], pattern: [**/*] anchored at: [getdown/files] in 26.20 ms |
| 29-Oct-2021 16:47:31 | Running post build plugin 'Artifactory Release Management Staging' |
| 29-Oct-2021 16:47:31 | Running post build plugin 'Artifactory Build Info Copier' |
| 29-Oct-2021 16:47:31 | Running post build plugin 'Artifactory Gradle Properties Info Copier' |
| 29-Oct-2021 16:47:31 | Running post build plugin 'npm Cache Cleanup' |
| 29-Oct-2021 16:47:31 | Running post build plugin 'Clover Results Collector' |
| 29-Oct-2021 16:47:31 | Running post build plugin 'Docker Container Cleanup' |
| 29-Oct-2021 16:47:31 | Finalising the build... |
| 29-Oct-2021 16:47:31 | Stopping timer. |
| 29-Oct-2021 16:47:31 | Build JB-GPC270-JOB1-1 completed. |
| 29-Oct-2021 16:47:31 | Running on server: post build plugin 'NCover Results Collector' |
| 29-Oct-2021 16:47:31 | Running on server: post build plugin 'Build Hanging Detection Configuration' |
| 29-Oct-2021 16:47:31 | Running on server: post build plugin 'Clover Delta Calculator' |
| 29-Oct-2021 16:47:31 | Running on server: post build plugin 'Maven Dependencies Postprocessor' |
| 29-Oct-2021 16:47:31 | All post build plugins have finished |
| 29-Oct-2021 16:47:31 | Generating build results summary... |
| 29-Oct-2021 16:47:31 | Saving build results to disk... |
| 29-Oct-2021 16:47:31 | Logging substituted variables... |
| 29-Oct-2021 16:47:31 | Indexing build results... |
| 29-Oct-2021 16:47:31 | Finished building JB-GPC270-JOB1-1. |