Jalview built by Gradle with getdown launcher and install4j packaging
Build: #24 did not complete
Job: Default Job did not complete
Build log
The build generated 107 lines of output. Download or view full build log
| 09-Jun-2020 10:58:36 | Build Jalview Builds - Gradle build with getdown and install4j - Default Job #24 (JB-JGP-JOB1-24) started building on agent Default Agent |
| 09-Jun-2020 10:58:36 | |
| 09-Jun-2020 10:58:36 | Build working directory is /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-JGP-JOB1 |
| 09-Jun-2020 10:58:36 | Executing build Jalview Builds - Gradle build with getdown and install4j - Default Job #24 (JB-JGP-JOB1-24) |
| 09-Jun-2020 10:58:36 | Starting task 'Checkout Default Repository' of type 'com.atlassian.bamboo.plugins.vcs:task.vcs.checkout' |
| 09-Jun-2020 10:58:36 | Checking out into /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-JGP-JOB1 |
| 09-Jun-2020 10:58:36 | Updating source code to revision: 8939be9b96e7e3f7e836037b972ddce75fa4a17e |
| 09-Jun-2020 10:58:36 | Fetching 'refs/heads/develop' from 'http://source.jalview.org/git/jalview.git'. |
| 09-Jun-2020 10:58:36 | Checking out revision 8939be9b96e7e3f7e836037b972ddce75fa4a17e. |
| 09-Jun-2020 10:58:38 | From file:///srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache/2597b807d50ab756c763be1d374b09c84289a164 |
| 09-Jun-2020 10:58:38 | 77745a4..8939be9 develop -> origin/develop |
| 09-Jun-2020 10:58:38 | * [new branch] JAL-3253-applet-SwingJS-omnibus -> origin/JAL-3253-applet-SwingJS-omnibus |
| 09-Jun-2020 10:58:38 | * [new branch] JAL-3253_applet_omnibus-BH -> origin/JAL-3253_applet_omnibus-BH |
| 09-Jun-2020 10:58:38 | * [new branch] Jalview-JS/JAL-3253-applet -> origin/Jalview-JS/JAL-3253-applet |
| 09-Jun-2020 10:58:38 | b2761fa..c844fbd Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e -> origin/Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e |
| 09-Jun-2020 10:58:38 | b61fb78..b89316f Jalview-JS/develop -> origin/Jalview-JS/develop |
| 09-Jun-2020 10:58:38 | * [new branch] Jalview-JS/develop.JAL-3445-BSML-reader -> origin/Jalview-JS/develop.JAL-3445-BSML-reader |
| 09-Jun-2020 10:58:38 | * [new branch] Jalview-JS/develop.JAL-3446.SequenceFeatureAsync -> origin/Jalview-JS/develop.JAL-3446.SequenceFeatureAsync |
| 09-Jun-2020 10:58:38 | * [new branch] Jalview-JS/develop.JAL-3446.ctrlDown -> origin/Jalview-JS/develop.JAL-3446.ctrlDown |
| 09-Jun-2020 10:58:38 | * [new branch] Jalview-JS/update_java2script -> origin/Jalview-JS/update_java2script |
| 09-Jun-2020 10:58:38 | * [new branch] alpha/merge_212_JalviewJS_2112 -> origin/alpha/merge_212_JalviewJS_2112 |
| 09-Jun-2020 10:58:38 | * [new branch] blocker/JAL-3611_space_character_in_jalview_install_path -> origin/blocker/JAL-3611_space_character_in_jalview_install_path |
| 09-Jun-2020 10:58:38 | * [new branch] bug/JAL-3529_uniprotidsinstockholm -> origin/bug/JAL-3529_uniprotidsinstockholm |
| 09-Jun-2020 10:58:38 | * [new branch] bug/JAL-3541_cloverReport_gradle_task_fails -> origin/bug/JAL-3541_cloverReport_gradle_task_fails |
| 09-Jun-2020 10:58:38 | * [new branch] bug/JAL-3541_clover_as_javaexec -> origin/bug/JAL-3541_clover_as_javaexec |
| 09-Jun-2020 10:58:38 | * [new branch] bug/JAL-3567virtualFeatureCoordinates -> origin/bug/JAL-3567virtualFeatureCoordinates |
| 09-Jun-2020 10:58:38 | * [new branch] bug/JAL-3574filterByPOS -> origin/bug/JAL-3574filterByPOS |
| 09-Jun-2020 10:58:38 | * [new branch] bug/JAL-3609_HiDPI_in_Linux -> origin/bug/JAL-3609_HiDPI_in_Linux |
| 09-Jun-2020 10:58:38 | * [new branch] bug/JAL-3613emblCDSTracking -> origin/bug/JAL-3613emblCDSTracking |
| 09-Jun-2020 10:58:38 | * [new branch] bug/JAL-3628_Unable_to_save_update_to_existing_file_in_Windows -> origin/bug/JAL-3628_Unable_to_save_update_to_existing_file_in_Windows |
| 09-Jun-2020 10:58:38 | * [new branch] feature/JAL-3551Pymol -> origin/feature/JAL-3551Pymol |
| 09-Jun-2020 10:58:38 | * [new branch] feature/JAL-3624siftsInJS -> origin/feature/JAL-3624siftsInJS |
| 09-Jun-2020 10:58:38 | * [new branch] features/JAL-3638_jumptonextindel -> origin/features/JAL-3638_jumptonextindel |
| 09-Jun-2020 10:58:38 | * [new branch] features/JAL-3641_phredfromfastq -> origin/features/JAL-3641_phredfromfastq |
| 09-Jun-2020 10:58:38 | * [new branch] features/JAL-518_justify_seqs_in_region -> origin/features/JAL-518_justify_seqs_in_region |
| 09-Jun-2020 10:58:38 | * [new branch] improvement/JAL-3289_new_launch_screens -> origin/improvement/JAL-3289_new_launch_screens |
| 09-Jun-2020 10:58:38 | * [new branch] merge/Jalview-JS_develop_with_develop_build.gradle_gradle.properties_utils_install4j -> origin/merge/Jalview-JS_develop_with_develop_build.gradle_gradle.properties_utils_install4j |
| 09-Jun-2020 10:58:38 | * [new branch] patch/JAL-3626_gradle_refinementsfrom2111 -> origin/patch/JAL-3626_gradle_refinementsfrom2111 |
| 09-Jun-2020 10:58:38 | * [new branch] releases/Release_2_11_1_Branch -> origin/releases/Release_2_11_1_Branch |
| 09-Jun-2020 10:58:38 | * [new branch] story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window -> origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window |
| 09-Jun-2020 10:58:38 | * [new branch] task/JAL-3608_property_set_laf_and_tests -> origin/task/JAL-3608_property_set_laf_and_tests |
| 09-Jun-2020 10:58:38 | * [new branch] task/JAL-3609_HiDPI_support_in_java -> origin/task/JAL-3609_HiDPI_support_in_java |
| 09-Jun-2020 10:58:38 | * [new branch] testing/JAL-3577_jalviewversion_autoset -> origin/testing/JAL-3577_jalviewversion_autoset |
| 09-Jun-2020 10:58:38 | * [new branch] testing/JAL-3577_jalviewversion_autoset_fixed -> origin/testing/JAL-3577_jalviewversion_autoset_fixed |
| 09-Jun-2020 10:58:38 | * [new branch] trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker -> origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker |
| 09-Jun-2020 10:58:38 | * [new tag] Release_2_11_1_0 -> Release_2_11_1_0 |
| 09-Jun-2020 10:58:38 | Already on 'develop' |
| 09-Jun-2020 10:58:38 | Your branch is behind 'origin/develop' by 1039 commits, and can be fast-forwarded. |
| 09-Jun-2020 10:58:38 | (use "git pull" to update your local branch) |
| 09-Jun-2020 10:58:39 | HEAD is now at 8939be9 JAL-3446 new Jmol 15.1.3 jar added to j11lib, old j11lib Jmol-14.29.17-no_netscape.jar removed |
| 09-Jun-2020 10:58:39 | Updated source code to revision: 8939be9b96e7e3f7e836037b972ddce75fa4a17e |
| 09-Jun-2020 10:58:39 | Finished task 'Checkout Default Repository' with result: Success |
| 09-Jun-2020 10:58:39 | Running pre-build action: VCS Version Collector |
| 09-Jun-2020 10:58:39 | Running pre-build action: Artifactory Release Staging |
| 09-Jun-2020 10:58:39 | Substituting variable: ${bamboo.planKey} with JB-JGP |
| 09-Jun-2020 10:58:39 | Starting task 'Jalview distribution for Java 11' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' |
| 09-Jun-2020 10:58:39 | Bamboo Artifactory Plugin version: 2.6.2 |
| 09-Jun-2020 10:58:39 | Beginning to execute external process for build 'Jalview Builds - Gradle build with getdown and install4j - Default Job #24 (JB-JGP-JOB1-24)' ... running command line: /home/bamboo/buildtools/gradle/bin/gradle -x test -PJAVA_VERSION=11 -PCHANNEL=BUILD -Pbamboo_planKey=JB-JGP clean makeDist shadowJar getdown installers ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-JGP-JOB1 ... using extra environment variables: bamboo_planRepository_1_branch=develop bamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr CATALINA_PID=/home/bamboo/latest/work/bamboo.pid bamboo_planRepository_1_branchDisplayName=develop bamboo_repository_revision_number=8939be9b96e7e3f7e836037b972ddce75fa4a17e bamboo_resultsUrl=https://builds.jalview.org/browse/JB-JGP-JOB1-24 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-JGP-JOB1 bamboo_planRepository_1_name=Jalview Git bamboo_buildKey=JB-JGP-JOB1 bamboo_capability_system_jdk_JDK_1_8_0_171=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.171-8.b10.el7_5.x86_64 bamboo_shortPlanName=Gradle build with getdown and install4j bamboo_repository_6258691_git_branch=develop bamboo_repository_6258691_branch_name=develop bamboo_planRepository_name=Jalview Git LOGNAME=bamboo bamboo_buildNumber=24 PWD=/ bamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse bamboo_capability_system_jdk_OpenJDK_11_JRE_only=/home/bamboo/buildtools/jvm/jre11_x64_linux bamboo_shortJobName=Default Job bamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-JGP-JOB1-24 bamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git SHELL=/bin/bash bamboo_agentId=196609 bamboo_planName=Jalview Builds - Gradle build with getdown and install4j bamboo_repository_6258691_git_username= bamboo_shortPlanKey=JGP bamboo_shortJobKey=JOB1 bamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/OpenJDK11/jdk-11 bamboo_planRepository_revision=8939be9b96e7e3f7e836037b972ddce75fa4a17e bamboo_repository_6258691_name=Jalview Git bamboo_buildTimeStamp=2020-06-09T10:58:36.036+01:00 bamboo_repository_previous_revision_number=77745a47387bb12c3e4dea8bbec8ff38499571f2 bamboo_planRepository_previousRevision=77745a47387bb12c3e4dea8bbec8ff38499571f2 bamboo_repository_git_branch=develop bamboo_buildResultKey=JB-JGP-JOB1-24 bamboo_repository_branch_name=develop bamboo_buildPlanName=Jalview Builds - Gradle build with getdown and install4j - Default Job bamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11 bamboo_planRepository_1_revision=8939be9b96e7e3f7e836037b972ddce75fa4a17e SHLVL=1 bamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant bamboo_repository_6258691_previous_revision_number=77745a47387bb12c3e4dea8bbec8ff38499571f2 bamboo_repository_name=Jalview Git JAVA_HOME=/home/bamboo/buildtools/OpenJDK11/jdk-11/ bamboo_dependenciesDisabled=false LANG=en_GB.UTF-8 bamboo_buildFailed=false bamboo_planRepository_branch=develop bamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609 bamboo_capability_system_git_executable=/bin/git bamboo_repository_git_username= bamboo_planRepository_1_previousRevision=77745a47387bb12c3e4dea8bbec8ff38499571f2 bamboo_planRepository_branchDisplayName=develop bamboo_planRepository_1_type=gitv2 bamboo_planRepository_branchName=develop _=/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_capability_system_jdk_JDK=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.171-8.b10.el7_5.x86_64 bamboo_plan_storageTag=plan-6062085 bamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle bamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache bamboo_planRepository_1_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_repository_6258691_revision_number=8939be9b96e7e3f7e836037b972ddce75fa4a17e bamboo_tmp_directory=/srv/bamboo/bamboo-home/temp bamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-JGP-JOB1 bamboo_planKey=JB-JGP bamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_planRepository_username= bamboo_capability_system_jdk_JDK_1_8=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.171-8.b10.el7_5.x86_64 bamboo_repository_6258691_git_repositoryUrl=http://source.jalview.org/git/jalview.git HOME=/home/bamboo bamboo_planRepository_1_branchName=develop PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin |
| 09-Jun-2020 10:58:41 | |
| 09-Jun-2020 10:58:41 | > Configure project : |
| 09-Jun-2020 10:58:41 | HEADLESS BUILD |
| 09-Jun-2020 10:58:41 | J2S ENABLED |
| 09-Jun-2020 10:58:41 | Using a BUILD profile. |
| 09-Jun-2020 10:58:41 | eclipseDir exists |
| 09-Jun-2020 10:58:41 | |
| 09-Jun-2020 10:58:41 | > Task :clean |
| 09-Jun-2020 10:58:41 | > Task :cleanPackageDir |
| 09-Jun-2020 10:58:42 | > Task :copyHelp |
| 09-Jun-2020 10:58:43 | > Task :buildIndices |
| 09-Jun-2020 10:58:45 | |
| 09-Jun-2020 10:58:45 | > Task :compileJava |
| 09-Jun-2020 10:58:45 | Setting target compatibility to 11 |
| 09-Jun-2020 10:58:49 | Request to stop 'JB-JGP-JOB1-24' received from Soares |
| 09-Jun-2020 10:58:50 | Exception executing command "/home/bamboo/buildtools/gradle/bin/gradle -x test -PJAVA_VERSION=11 -PCHANNEL=BUILD -Pbamboo_planKey=JB-JGP clean makeDist shadowJar getdown installers Interrupted while waiting for process to finishcom.atlassian.utils.process.ProcessException: Interrupted while waiting for process to finish |
| 09-Jun-2020 10:58:50 | Failing task since return code of [/home/bamboo/buildtools/gradle/bin/gradle -x test -PJAVA_VERSION=11 -PCHANNEL=BUILD -Pbamboo_planKey=JB-JGP clean makeDist shadowJar getdown installers] was 143 while expected 0 |
| 09-Jun-2020 10:58:50 | Finished task 'Jalview distribution for Java 11' with result: Failed |
| 09-Jun-2020 10:58:50 | Running post build plugin 'NCover Results Collector' |
| 09-Jun-2020 10:58:50 | Running post build plugin 'Artifact Copier' |
| 09-Jun-2020 10:58:50 | Publishing an artifact: Jalview getdown launcher |
| 09-Jun-2020 10:58:50 | Finished publishing of artifact Shared artifact: [Jalview getdown launcher], pattern: [**/*] anchored at: [getdown/files] in 194.4 ms |
| 09-Jun-2020 10:58:50 | Publishing an artifact: getdown-channel |
| 09-Jun-2020 10:58:51 | Finished publishing of artifact Shared artifact: [getdown-channel], pattern: [**/*] anchored at: [getdown/website] in 1.225 s |
| 09-Jun-2020 10:58:51 | Publishing an artifact: install4j installers |
| 09-Jun-2020 10:58:51 | Unable to publish artifact [install4j installers]: the source directory /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-JGP-JOB1/build/install4j does not exist. |
| 09-Jun-2020 10:58:51 | The artifact hasn't been successfully published after 212.8 μs |
| 09-Jun-2020 10:58:51 | Publishing an artifact: Jalview executables |
| 09-Jun-2020 10:58:51 | Unable to publish artifact [Jalview executables]: the source directory /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-JGP-JOB1/build/libs does not exist. |
| 09-Jun-2020 10:58:51 | The artifact hasn't been successfully published after 72.63 μs |
| 09-Jun-2020 10:58:51 | Running post build plugin 'Artifactory Release Management Staging' |
| 09-Jun-2020 10:58:51 | Running post build plugin 'Artifactory Build Info Copier' |
| 09-Jun-2020 10:58:51 | Running post build plugin 'Artifactory Gradle Properties Info Copier' |
| 09-Jun-2020 10:58:51 | Running post build plugin 'npm Cache Cleanup' |
| 09-Jun-2020 10:58:51 | Running post build plugin 'Clover Results Collector' |
| 09-Jun-2020 10:58:51 | Running post build plugin 'Docker Container Cleanup' |
| 09-Jun-2020 10:58:51 | Finalising the build... |
| 09-Jun-2020 10:58:51 | Stopping timer. |
| 09-Jun-2020 10:58:51 | Build JB-JGP-JOB1-24 completed. |
| 09-Jun-2020 10:58:51 | Running on server: post build plugin 'NCover Results Collector' |
| 09-Jun-2020 10:58:51 | Running on server: post build plugin 'Build Hanging Detection Configuration' |
| 09-Jun-2020 10:58:51 | Running on server: post build plugin 'Clover Delta Calculator' |
| 09-Jun-2020 10:58:51 | Running on server: post build plugin 'Maven Dependencies Postprocessor' |
| 09-Jun-2020 10:58:51 | All post build plugins have finished |
| 09-Jun-2020 10:58:51 | Generating build results summary... |
| 09-Jun-2020 10:58:51 | Saving build results to disk... |
| 09-Jun-2020 10:58:51 | Logging substituted variables... |
| 09-Jun-2020 10:58:51 | Indexing build results... |
| 09-Jun-2020 10:58:51 | Finished building JB-JGP-JOB1-24. |