Create easy access JVL files/links for launching in Jalview Develop
Build: #61 was successful
Job: Default Job was successful
Build log
The build generated 2,077 lines of output.The output is too long and has been truncated to the last 1,000 lines. Download or view full build log
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/reviews/features/JAL-2136_phyre2_integration_withJims does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/GFF_as_first_class_filetype_improvements_JAL-4028/placeholders_get_additional_sequence_data does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-1950_hmmer3client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-2778_changelookandfeelOpaqueWindows does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3548_exampleRestServer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3622_Scanner_swingjs_J212_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3690_with_patched_j2s_v3_2_9_plugin does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3753_helphtmldupes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3781_2d_scaling does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-4047/JAL-4048_columns_in_sequenceID does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-4055_retire_JDesktop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/clinvar does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/javier_noseqhack does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/jims/Release_2_12_alpha does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/jims_dec_2022_212_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/phyre2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/t_sne_paeMatrix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/JAL-4113_javafx_with_Jalview_MSA does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/jim does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/kira does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/koen does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/mungo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/phyre does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/thomas does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/toch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3042_remove_SimpleDocument_dependency does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3059_updateJmolandSwingJS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3089annLabelsPopup does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3130_Java_11_investigations-Ben-2-CHANGES_TO_DEPRECATED_CALLS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3193mergeEnsemblGenomes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3210_ben_testing_jalviewJS_building does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3252_adapt_getdown_to_unpack_tgz_resource_files does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3281_Automatic_installers_download_table_generation does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3349_Support_cli_JRE_arguments_through_getdown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3594_getdown_launcher_style does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3789_configurable_j2s_file_for_headless_transpile does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3805_Remove_Old_Jalview_Uninstaller_application does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3911_getdown_improvements does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_GA4_cherry_picked does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_Plausible does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_firebase_test does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4059_updateJmolandSwingJS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/r2_11_2/JAL-3871_Jmol_dedup does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/tasks/JAL-3067_slivkaprep does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/tasks/JAL-3070_wsinterfaces does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/test/JAL-2422_testing_on_linux does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/test/JAL-3416_setOpaque_true_test_with_JalviewInternalFrame does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/testing/JAL-3577_jalviewversion_autoset does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/testpaches/JAL-2719_JAL-1264_testfails does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3066_updated_testng does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3066_updated_testng_2022-01-28 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3949_update_code_to_use_log4j-2_directly does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-4108_212_testng_jar_update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/vamsasDemo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Archived_Release_2_7 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_10_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_11_2_7 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_4_0 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_5_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_6_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/2_5_1_rna_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1260_droldan does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1375_ncbiclient does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1562_help-documentation-system-refactoring does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1601-direct-jpred4-rest-service does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-2739_2.10.2b1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3253-applet-113cc13-2019.08.28-js-optimizations does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3253-applet-SwingJS-omnibus does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3253-applet-test does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3253_applet_omnibus-BH does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3315_getdown_1_8_6_update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3368_JavaScript_colors does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3437_load_project does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3866_RNAalifold-slivka-client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3878-ws-overhaul does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3878_web_services_overhaul does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3878_web_services_overhaul_no_clover does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3878_ws-overhaul-3 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3927_ws_preferences_dialog_fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3954_ebi_phmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-4152-typed-singleton-provider does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-4154-platform-specific-constants does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-429_phylip-file-support does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JalScape/JAL-1332 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/20190123 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3253-applet does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3445_support_for_BSML does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3453-TestNG-Desktop-getInstanceOnly does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3560-bh-temp does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3560_bob_temp does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3563-sync-TestNG-test-bob does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/demo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop-JAL-3559 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop-updated-gradle does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop.JAL-3445-BSML-reader does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.SequenceFeatureAsync does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.ctrlDown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop_j2s_v3_2_9_j11 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/gradle-minimal does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/gradle_with_goomph does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/gradle_with_inline_eclipse does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/jim/JAL-3253-JAL-3418 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/update_java2script does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-jJS/JAL-3253-applet-JAL-3436 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Pre_R29_develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/RNAalifold does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_3_BuildFix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_4_branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_5_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_6_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_7_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_8_1_Branch_i18n does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_8_2_Branch_i18n does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_8_2b1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_9_0b1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_9_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Tcoffee_JAL-1065 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/VamJalview does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/JAL-3066_Jalview_212_slivka-integration does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/JAL-3362_Jalview_212_alpha does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/JAL-3899_deuniquify_refactor does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/Jalview_212_test_merged_buildgradle does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/merge_212_JalviewJS_2112 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/arnaud/JAL-3929_spike does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-1644_Finder-logic-improvement does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-1712annotationsWithFlanking does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-1988_quit_window_focus does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2023_cdsProjectError does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2339helpBullets does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2541_JAL-2823_cutAndRelocateFeatures_needs_merge_from_211_release does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2791selectVisibleFeatures does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2848resetColoursAmendFeatures does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2876byLabelThreshold does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2907stockholmGapChar does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3003epsWithSelection does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3059groupBorder does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3083cancelAnnotationColour does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3088_RNA_secondary_structure_annotation_final-ending-solo-brace_arrow_points_the_wrong_way does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3178nonposFeatureExport_take2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3183groupColourOverwritten does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3184restoreGroupVisibility does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3195idResolution does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3201groupClustal does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3202zerosInProfile does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3212columnSelectionWithHidden does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3215hydroColours does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9-2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3288_override_all_JInternalFrame_with_Classic_JInternalFrame does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3365_failing_per_sequence_ss_tests does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3473_SpinnerNumberModel_causing_IllegalArgumentException does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3487-splash-JS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3489mapChainsFromFile does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3490findSpanHiddenGaps does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3502wrappedScale does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-360+JAL-3975_keyboard_input_lost_after_dialog does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3609_HiDPI_in_Linux does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-360_JAL-3984_F2_stops_working_after_some_dialogs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3613emblCDSTracking does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3633_Allow_HTTPS_proxy_configuration_for_getdown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3648graphDragRelease does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3702_Drag_and_drop_miscalculation_in_linux_HiDPI does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3705saveProteinId does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3706virtualStopCodon does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3725overlappingVirtualFeatures does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3744_read_gzip_file_in_jalviewjs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3751_revisited does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3751overlappingCDS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3761_locateInFromTo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3774_splitFrameFinder does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3779setGroupProperties does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3788_autoOverviewClustal does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3807_jpred-with-slivka does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3809_ws_params_dialog_fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3810_annotation_ws_stopping_abruptly does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3849_aacon-parameters does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3972_VAqua_for_Java11 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3975_keyboard_input_stops_working_after_create_sequence_feature does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4026_fix_failingSeqPanel does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4041_no_3dbeacons_when_no_uniprotseq does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4041_problems_with_3dbeacons_search does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4072_zip_slip_vulnerability_in_getdown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4073_pfam_website_being_decommissioned does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4118_Fix_QuitHandlerTest does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4153_JvCacheableInputBoxTest_flaky_on_build_server does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4225_rnaalifold_structure_not_recognised_as_such does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4229_varna_helix_mapping_offby1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4290_headless_alignment_export_with_structure_annotations_doesnt_include_secondary_structure_and_temperature_factor does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4313-make-visible-annot-fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment_with_renderpatch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4369_uniprot_in_jalviewJS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4374_missing_colon_when_using_jalview_scheme_with_host_and_port does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4389-web-services-prefs-panel does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/cherry-pick/JAL-3621_to_Release_2_11_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/cherry-pick/JAL-3691_to_2.11.2_localeSafeFileImport does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/cherrypicks/JAL-3660_JAL-3561_JAL-3662_cli_outputformat does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/codereviews/JAL-1990_IProgressIndicator_jalview.structure does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/development/JAL-3878_ws_overhaul_3_merged_with_2_12_Merged does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/development/Release_2_12_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/development/Release_2_12_Branch_JAL-4102_21126_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-1260_genbank_embl_flatfile_import_reloaded does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2087ensemblSpeciesAssist does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2422ChimeraX does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2611 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2674take2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2738GeneLocus does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2873ensemblSpeciesQuery does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2909bamfiles does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2909bamfiles_features does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3081customAnnOrder does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3117_overviewFocusAlignment does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3148structureColourSchemes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3187viewstyleFlags does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3190jalviewjsChimera does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3194_create_launcher_with_dynamic_memory_heap_setting does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3251biotypedMappings does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3364splitFrameImage does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3390hideUnmappedStructure does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3400viewChainsMenu does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3442colourCaching does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3443findColorAsInt does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3469clinvarVCF does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3481_conservation_gap_threshold_preferences does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3499featuresFileMotifs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3515-slivka-preferences does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3686_slivka_client_js_update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3690_callback-based-web-services does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView_2.11.2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3730ensemblPingRetries does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3739_useFormFieldText does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3851_prototype_comms_for_jbrowse2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser_updated_with_develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3874_add_source_jars_to_eclipse does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3954-ebi-phmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3982_mouseover_highlighting_viaJAL-3860 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-4227_Rfam2020_sslines does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-4392_consensus_secondary_structure does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-819undeleteAutoannotation does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/r2_11_2/JAL-3808_gff2_exonerate does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1499 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1499_MEGA does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1601_jpred4rest does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-161_JAL-4172_nhx_tags_in_stockholm does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-161_JAL-4173_nhx_tags_in_stockholm does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1641_JSON does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1641_JSON-File-format does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1807java2Script does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1953_Archeopteryx_with_Jalview_2_11_2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1965_JAL-753_JAL-1427_relaxedIdMatch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1978_msagrid does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2040_JAL-2137_phyre2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2055alternateFeatureColours does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2094_colourInterface does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2103 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2136_phyre2_integration does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2136_phyre2_integration_updated does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2253ensemblGenomes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2351jmolExchange does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2476dropFiles does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-250_hideredundantseqs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2909_bamImport2_11 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2909_bamImport_2_11_2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3010ontologyFeatureSettings does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3020attributeValuePrompting does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3085_gnupdf does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3417_sdppred_calcs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-345_selectFromFind does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3638_jumptonextindel does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3641_phredfromfastq does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-4071_visibleFeaturesCounter does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-4159_adjustable_gapparams_in_nw does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-4220_showSymbolsBelowConsensusThresholdAsGaps does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-629_with_threads_NOT_PASSING_TESTS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-666_exportoverview does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-722alignmentProperties does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-728alternateQuality does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-845linkedProteinDnaEditing does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-845splitPaneMergeDevelop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/hmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/hmmer_statistics does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/mchmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/mchmmer_merge_JAL-1950 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/r2_11_2/JAL-3922_jmolSelectionHighlighting does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/r2_11_2_JAL-3829_3dbeacons does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/r2_11_2_JAL-3929_3dbeacons does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/r_2_11_2_JAL-819_undeleteAutoAnnotation does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/flakytests/JAL-4026_AlignViewportWaitforcalculations does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/hack/JAL-1617_workaround does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3289_new_launch_screens does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3384_Redirect_stdout_and_stdin_to_files does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3393_Improved_DMG_background_image_beta_strand does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3393_make_DMG_background_image_relative_path_in_DS_Store does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3416_FlatLaf_3.2.1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3416_GTK_look_and_feel does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3438_eclipse_java_code_formatting_as_a_gradle_task does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3594_BG_and_UoD_logos_added does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3594_added_subtle_grey_tesselating_logos_to_getdown_splashscreen does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3728_icons_for_independent_jframes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3790_enable_copy_to_clipboard_of_getdown_splashscreen_text does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3826_gradle_configuration_for_intellij_idea does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3847_add_dependencies_reported_by_gradle_7 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3847_some_attempts_to_set_gradle_and_groovy_versions does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8_updated_jslib does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-4054_Upgrade_to_install4j10 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-4064_M1_native_JRE_bundled_in_DMG does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-4245-return-null-from-getRootDataset does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-bh does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-bh-2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-jim does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-mungo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-toc does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/jalview-headless does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/jims/work_on_2_12/JAL-3664_hmmer_ux does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/CipresWebservices does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/PhylogenyViewer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/PhylogenyViewer_tabbedsupport does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/forester does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/testing does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/Ben_trying_out_JSdevelop_with_develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-2136_phyre2_integration does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3187_JAL-3010 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3210_developToJSDevelop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3285_mchmmer_with_211_develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3628+JAL-3608+JAL-3609+JAL-3541+JAL-3633+Release_2_11_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3628+JAL-3608+JAL-3609+JAL-3541+Release_2_11_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-845_JAL-1640 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/Jalview-JS/develop_feature/JAL-3690_callback-based-web-services does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merged_2_11_2_0_to_2_12 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmm/JAL-4199-web-services-testing does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-3878-ws-overhaul does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-3878_ws-overhaul-3 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-3954-ebi-phmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-3954_ebi_phmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-4139-multi-harmony-patch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-4199-task-execution-update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-4199-web-services-testing does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/Release_2_12_ws_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix-slivka does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-1236_customClustalHeader does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-2694_maptoallchainsworkaround does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-2755_UniprotEnsemblSubnameWorkaround does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-2914_relaxedGFFpragmas does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-2996_JAL-3053_tildeBracketsPipesEtcAsGapChars does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3562_fixAlignmentPanelTest does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3584_cherrypickto-JAL-3676_2.11.1.1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3626_gradle_refinementsfrom2111 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3794_X_is_a_dna_rna_base_too does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3821_ena_rna_moltype does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3847_gradleV7andV8Patches does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4079_scalability_bottlenecks does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4155_IdCanvas_getAlignPanel_fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4195_calcWorker_for_2_11_2_6 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4216_negative_startend does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4222_quit_with_gui_export_cli_args does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4232-disable-unavailable-services does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4410_multimers_from_3dbeacons does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/r2_11_2_6/JAL-2350_embl_xrefs_from_uniprot_version_consistency does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_10_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_10_2b1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_10_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_11_2_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_9_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/reviews/features/JAL-2136_phyre2_integration_withJims does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/GFF_as_first_class_filetype_improvements_JAL-4028/placeholders_get_additional_sequence_data does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-1950_hmmer3client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-2778_changelookandfeelOpaqueWindows does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3548_exampleRestServer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3622_Scanner_swingjs_J212_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3690_with_patched_j2s_v3_2_9_plugin does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3753_helphtmldupes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3781_2d_scaling does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-4047/JAL-4048_columns_in_sequenceID does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-4055_retire_JDesktop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/clinvar does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/javier_noseqhack does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/jims/Release_2_12_alpha does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/jims_dec_2022_212_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/phyre2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/t_sne_paeMatrix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/JAL-4113_javafx_with_Jalview_MSA does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/jim does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/kira does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/koen does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/mungo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/phyre does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/thomas does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/toch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3042_remove_SimpleDocument_dependency does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3059_updateJmolandSwingJS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3089annLabelsPopup does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3130_Java_11_investigations-Ben-2-CHANGES_TO_DEPRECATED_CALLS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3193mergeEnsemblGenomes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3210_ben_testing_jalviewJS_building does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3252_adapt_getdown_to_unpack_tgz_resource_files does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3281_Automatic_installers_download_table_generation does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3349_Support_cli_JRE_arguments_through_getdown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3594_getdown_launcher_style does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3789_configurable_j2s_file_for_headless_transpile does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3805_Remove_Old_Jalview_Uninstaller_application does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3911_getdown_improvements does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_GA4_cherry_picked does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_Plausible does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_firebase_test does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4059_updateJmolandSwingJS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/r2_11_2/JAL-3871_Jmol_dedup does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/tasks/JAL-3067_slivkaprep does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/tasks/JAL-3070_wsinterfaces does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/test/JAL-2422_testing_on_linux does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/test/JAL-3416_setOpaque_true_test_with_JalviewInternalFrame does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/testing/JAL-3577_jalviewversion_autoset does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/testpaches/JAL-2719_JAL-1264_testfails does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3066_updated_testng does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3066_updated_testng_2022-01-28 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3949_update_code_to_use_log4j-2_directly does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-4108_212_testng_jar_update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/vamsasDemo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Archived_Release_2_7 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_10_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_11_2_7 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_4_0 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_5_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_6_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | From file:///srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache/2597b807d50ab756c763be1d374b09c84289a164 |
| 18-Sep-2024 03:12:48 | 0e2404d..839b67d develop -> origin/develop |
| 18-Sep-2024 03:12:48 | 7c1dec9..7edd078 releases/Release_2_11_4_Branch -> origin/releases/Release_2_11_4_Branch |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/2_5_1_rna_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1260_droldan does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1375_ncbiclient does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1562_help-documentation-system-refactoring does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-1601-direct-jpred4-rest-service does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-2739_2.10.2b1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3253-applet-113cc13-2019.08.28-js-optimizations does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3253-applet-SwingJS-omnibus does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3253-applet-test does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3253_applet_omnibus-BH does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3315_getdown_1_8_6_update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3368_JavaScript_colors does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3437_load_project does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3866_RNAalifold-slivka-client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3878-ws-overhaul does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3878_web_services_overhaul does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3878_web_services_overhaul_no_clover does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3878_ws-overhaul-3 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3927_ws_preferences_dialog_fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-3954_ebi_phmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-4152-typed-singleton-provider does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-4154-platform-specific-constants does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JAL-429_phylip-file-support does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/JalScape/JAL-1332 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/20190123 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3253-applet does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3445_support_for_BSML does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3453-TestNG-Desktop-getInstanceOnly does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3560-bh-temp does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3560_bob_temp does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/JAL-3563-sync-TestNG-test-bob does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/demo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop-JAL-3559 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop-updated-gradle does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop.JAL-3445-BSML-reader does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.SequenceFeatureAsync does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.ctrlDown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/develop_j2s_v3_2_9_j11 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/gradle-minimal does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/gradle_with_goomph does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/gradle_with_inline_eclipse does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/jim/JAL-3253-JAL-3418 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-JS/update_java2script does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Jalview-jJS/JAL-3253-applet-JAL-3436 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Pre_R29_develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/RNAalifold does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_3_BuildFix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_4_branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_5_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_6_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_7_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_8_1_Branch_i18n does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_8_2_Branch_i18n does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_8_2b1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_9_0b1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Release_2_9_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/Tcoffee_JAL-1065 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/VamJalview does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/JAL-3066_Jalview_212_slivka-integration does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/JAL-3362_Jalview_212_alpha does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/JAL-3899_deuniquify_refactor does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/Jalview_212_test_merged_buildgradle does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/alpha/merge_212_JalviewJS_2112 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/arnaud/JAL-3929_spike does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-1644_Finder-logic-improvement does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-1712annotationsWithFlanking does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-1988_quit_window_focus does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2023_cdsProjectError does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2339helpBullets does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2541_JAL-2823_cutAndRelocateFeatures_needs_merge_from_211_release does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2791selectVisibleFeatures does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2848resetColoursAmendFeatures does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2876byLabelThreshold does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-2907stockholmGapChar does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3003epsWithSelection does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3059groupBorder does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3083cancelAnnotationColour does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3088_RNA_secondary_structure_annotation_final-ending-solo-brace_arrow_points_the_wrong_way does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3178nonposFeatureExport_take2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3183groupColourOverwritten does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3184restoreGroupVisibility does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3195idResolution does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3201groupClustal does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3202zerosInProfile does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3212columnSelectionWithHidden does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3215hydroColours does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9-2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3288_override_all_JInternalFrame_with_Classic_JInternalFrame does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3365_failing_per_sequence_ss_tests does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3473_SpinnerNumberModel_causing_IllegalArgumentException does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3487-splash-JS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3489mapChainsFromFile does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3490findSpanHiddenGaps does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3502wrappedScale does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-360+JAL-3975_keyboard_input_lost_after_dialog does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3609_HiDPI_in_Linux does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-360_JAL-3984_F2_stops_working_after_some_dialogs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3613emblCDSTracking does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3633_Allow_HTTPS_proxy_configuration_for_getdown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3648graphDragRelease does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3702_Drag_and_drop_miscalculation_in_linux_HiDPI does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3705saveProteinId does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3706virtualStopCodon does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3725overlappingVirtualFeatures does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3744_read_gzip_file_in_jalviewjs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3751_revisited does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3751overlappingCDS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3761_locateInFromTo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3774_splitFrameFinder does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3779setGroupProperties does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3788_autoOverviewClustal does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3807_jpred-with-slivka does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3809_ws_params_dialog_fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3810_annotation_ws_stopping_abruptly does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3849_aacon-parameters does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3972_VAqua_for_Java11 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-3975_keyboard_input_stops_working_after_create_sequence_feature does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4026_fix_failingSeqPanel does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4041_no_3dbeacons_when_no_uniprotseq does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4041_problems_with_3dbeacons_search does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4072_zip_slip_vulnerability_in_getdown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4073_pfam_website_being_decommissioned does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4118_Fix_QuitHandlerTest does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4153_JvCacheableInputBoxTest_flaky_on_build_server does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4225_rnaalifold_structure_not_recognised_as_such does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4229_varna_helix_mapping_offby1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4290_headless_alignment_export_with_structure_annotations_doesnt_include_secondary_structure_and_temperature_factor does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4313-make-visible-annot-fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment_with_renderpatch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4369_uniprot_in_jalviewJS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4374_missing_colon_when_using_jalview_scheme_with_host_and_port does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/bug/JAL-4389-web-services-prefs-panel does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/cherry-pick/JAL-3621_to_Release_2_11_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/cherry-pick/JAL-3691_to_2.11.2_localeSafeFileImport does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/cherrypicks/JAL-3660_JAL-3561_JAL-3662_cli_outputformat does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/codereviews/JAL-1990_IProgressIndicator_jalview.structure does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/development/JAL-3878_ws_overhaul_3_merged_with_2_12_Merged does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/development/Release_2_12_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/development/Release_2_12_Branch_JAL-4102_21126_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-1260_genbank_embl_flatfile_import_reloaded does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2087ensemblSpeciesAssist does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2422ChimeraX does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2611 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2674take2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2738GeneLocus does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2873ensemblSpeciesQuery does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2909bamfiles does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-2909bamfiles_features does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3081customAnnOrder does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3117_overviewFocusAlignment does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3148structureColourSchemes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3187viewstyleFlags does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3190jalviewjsChimera does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3194_create_launcher_with_dynamic_memory_heap_setting does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3251biotypedMappings does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3364splitFrameImage does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3390hideUnmappedStructure does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3400viewChainsMenu does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3442colourCaching does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3443findColorAsInt does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3469clinvarVCF does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3481_conservation_gap_threshold_preferences does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3499featuresFileMotifs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3515-slivka-preferences does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3686_slivka_client_js_update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3690_callback-based-web-services does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView_2.11.2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3730ensemblPingRetries does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3739_useFormFieldText does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3851_prototype_comms_for_jbrowse2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser_updated_with_develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3874_add_source_jars_to_eclipse does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3954-ebi-phmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-3982_mouseover_highlighting_viaJAL-3860 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-4227_Rfam2020_sslines does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-4392_consensus_secondary_structure does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/JAL-819undeleteAutoannotation does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/feature/r2_11_2/JAL-3808_gff2_exonerate does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1499 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1499_MEGA does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1601_jpred4rest does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-161_JAL-4172_nhx_tags_in_stockholm does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-161_JAL-4173_nhx_tags_in_stockholm does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1641_JSON does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1641_JSON-File-format does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1807java2Script does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1953_Archeopteryx_with_Jalview_2_11_2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1965_JAL-753_JAL-1427_relaxedIdMatch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-1978_msagrid does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2040_JAL-2137_phyre2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2055alternateFeatureColours does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2094_colourInterface does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2103 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2136_phyre2_integration does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2136_phyre2_integration_updated does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2253ensemblGenomes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2351jmolExchange does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2476dropFiles does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-250_hideredundantseqs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2909_bamImport2_11 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-2909_bamImport_2_11_2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3010ontologyFeatureSettings does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3020attributeValuePrompting does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3085_gnupdf does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3417_sdppred_calcs does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-345_selectFromFind does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3638_jumptonextindel does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-3641_phredfromfastq does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-4071_visibleFeaturesCounter does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-4159_adjustable_gapparams_in_nw does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-4220_showSymbolsBelowConsensusThresholdAsGaps does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-629_with_threads_NOT_PASSING_TESTS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-666_exportoverview does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-722alignmentProperties does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-728alternateQuality does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-845linkedProteinDnaEditing does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/JAL-845splitPaneMergeDevelop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/hmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/hmmer_statistics does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/mchmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/mchmmer_merge_JAL-1950 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/r2_11_2/JAL-3922_jmolSelectionHighlighting does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/r2_11_2_JAL-3829_3dbeacons does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/r2_11_2_JAL-3929_3dbeacons does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/features/r_2_11_2_JAL-819_undeleteAutoAnnotation does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/flakytests/JAL-4026_AlignViewportWaitforcalculations does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/hack/JAL-1617_workaround does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3289_new_launch_screens does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3384_Redirect_stdout_and_stdin_to_files does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3393_Improved_DMG_background_image_beta_strand does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3393_make_DMG_background_image_relative_path_in_DS_Store does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3416_FlatLaf_3.2.1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3416_GTK_look_and_feel does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3438_eclipse_java_code_formatting_as_a_gradle_task does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3594_BG_and_UoD_logos_added does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3594_added_subtle_grey_tesselating_logos_to_getdown_splashscreen does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3728_icons_for_independent_jframes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3790_enable_copy_to_clipboard_of_getdown_splashscreen_text does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3826_gradle_configuration_for_intellij_idea does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3847_add_dependencies_reported_by_gradle_7 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3847_some_attempts_to_set_gradle_and_groovy_versions does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8_updated_jslib does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-4054_Upgrade_to_install4j10 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-4064_M1_native_JRE_bundled_in_DMG does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/improvement/JAL-4245-return-null-from-getRootDataset does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-bh does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-bh-2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-jim does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-mungo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/j2s/develop-toc does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/jalview-headless does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/jims/work_on_2_12/JAL-3664_hmmer_ux does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/CipresWebservices does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/PhylogenyViewer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/PhylogenyViewer_tabbedsupport does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/forester does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/kjvdh/features/testing does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/Ben_trying_out_JSdevelop_with_develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-2136_phyre2_integration does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3187_JAL-3010 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3210_developToJSDevelop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3285_mchmmer_with_211_develop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3628+JAL-3608+JAL-3609+JAL-3541+JAL-3633+Release_2_11_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-3628+JAL-3608+JAL-3609+JAL-3541+Release_2_11_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/JAL-845_JAL-1640 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merge/Jalview-JS/develop_feature/JAL-3690_callback-based-web-services does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/merged_2_11_2_0_to_2_12 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmm/JAL-4199-web-services-testing does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-3878-ws-overhaul does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-3878_ws-overhaul-3 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-3954-ebi-phmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-3954_ebi_phmmer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-4139-multi-harmony-patch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-4199-task-execution-update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/JAL-4199-web-services-testing does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/Release_2_12_ws_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix-slivka does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-1236_customClustalHeader does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-2694_maptoallchainsworkaround does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-2755_UniprotEnsemblSubnameWorkaround does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-2914_relaxedGFFpragmas does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-2996_JAL-3053_tildeBracketsPipesEtcAsGapChars does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3562_fixAlignmentPanelTest does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3584_cherrypickto-JAL-3676_2.11.1.1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3626_gradle_refinementsfrom2111 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3794_X_is_a_dna_rna_base_too does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3821_ena_rna_moltype does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-3847_gradleV7andV8Patches does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4079_scalability_bottlenecks does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4155_IdCanvas_getAlignPanel_fix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4195_calcWorker_for_2_11_2_6 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4216_negative_startend does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4222_quit_with_gui_export_cli_args does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4232-disable-unavailable-services does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/JAL-4410_multimers_from_3dbeacons does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/patch/r2_11_2_6/JAL-2350_embl_xrefs_from_uniprot_version_consistency does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_10_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_10_2b1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_10_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_11_2_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/releases/Release_2_9_1_Branch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/reviews/features/JAL-2136_phyre2_integration_withJims does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/GFF_as_first_class_filetype_improvements_JAL-4028/placeholders_get_additional_sequence_data does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-1950_hmmer3client does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-2778_changelookandfeelOpaqueWindows does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3548_exampleRestServer does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3622_Scanner_swingjs_J212_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3690_with_patched_j2s_v3_2_9_plugin does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3753_helphtmldupes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-3781_2d_scaling does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-4047/JAL-4048_columns_in_sequenceID does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/JAL-4055_retire_JDesktop does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/clinvar does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/javier_noseqhack does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/jims/Release_2_12_alpha does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/jims_dec_2022_212_merge does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/phyre2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spike/t_sne_paeMatrix does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/JAL-4113_javafx_with_Jalview_MSA does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/jim does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/kira does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/koen does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/mungo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/phyre does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/thomas does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/spikes/toch does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3042_remove_SimpleDocument_dependency does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3059_updateJmolandSwingJS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3089annLabelsPopup does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3130_Java_11_investigations-Ben-2-CHANGES_TO_DEPRECATED_CALLS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3193mergeEnsemblGenomes does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3210_ben_testing_jalviewJS_building does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3252_adapt_getdown_to_unpack_tgz_resource_files does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3281_Automatic_installers_download_table_generation does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3349_Support_cli_JRE_arguments_through_getdown does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3594_getdown_launcher_style does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3789_configurable_j2s_file_for_headless_transpile does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3805_Remove_Old_Jalview_Uninstaller_application does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-3911_getdown_improvements does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_GA4_cherry_picked does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_Plausible does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4001_firebase_test does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/JAL-4059_updateJmolandSwingJS does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/task/r2_11_2/JAL-3871_Jmol_dedup does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/tasks/JAL-3067_slivkaprep does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/tasks/JAL-3070_wsinterfaces does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/test/JAL-2422_testing_on_linux does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/test/JAL-3416_setOpaque_true_test_with_JalviewInternalFrame does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/testing/JAL-3577_jalviewversion_autoset does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/testpaches/JAL-2719_JAL-1264_testfails does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3066_updated_testng does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3066_updated_testng_2022-01-28 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-3949_update_code_to_use_log4j-2_directly does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/update/JAL-4108_212_testng_jar_update does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/remotes/origin/vamsasDemo does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Archived_Release_2_7 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_10_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_11_2_7 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_4_0 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_5_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | error: refs/tags/Release_2_6_1 does not point to a valid object! |
| 18-Sep-2024 03:12:48 | Already on 'develop' |
| 18-Sep-2024 03:12:48 | Your branch is behind 'origin/develop' by 1 commit, and can be fast-forwarded. |
| 18-Sep-2024 03:12:48 | (use "git pull" to update your local branch) |
| 18-Sep-2024 03:12:48 | HEAD is now at 839b67d JAL-4418 release notes typos |
| 18-Sep-2024 03:12:48 | Updated source code to revision: 839b67dfeae7dc17cc31bfd9035f70b22655995b |
| 18-Sep-2024 03:12:48 | Finished task 'Checkout Default Repository' with result: Success |
| 18-Sep-2024 03:12:48 | Running pre-build action: VCS Version Collector |
| 18-Sep-2024 03:12:48 | Running pre-build action: Artifactory Release Staging |
| 18-Sep-2024 03:12:48 | Substituting variable: ${bamboo.planKey} with JB-GDL |
| 18-Sep-2024 03:12:48 | Starting task 'Jalview Develop Launcher JVL (Java 11)' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' |
| 18-Sep-2024 03:12:48 | Bamboo Artifactory Plugin version: 2.6.2 |
| 18-Sep-2024 03:12:48 | Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Launchers - Default Job #61 (JB-GDL-JOB1-61)' ... running command line: /home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=BUILD -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GDL -Pbamboo_buildResultsUrl=${bamboo_buildResultsUrl} -Pbamboo_buildResultKey=${bamboo_buildResultKey} clean getdown ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1 ... using extra environment variables: bamboo_planRepository_1_branch=develop bamboo_dependency_parent_0=JB-GDB-690 bamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr CATALINA_PID=/home/bamboo/latest/work/bamboo.pid bamboo_dependency_parent_total=1 bamboo_planRepository_1_branchDisplayName=develop bamboo_repository_revision_number=839b67dfeae7dc17cc31bfd9035f70b22655995b bamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDL-JOB1-61 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-GDL-JOB1 bamboo_planRepository_1_name=Jalview Git bamboo_buildKey=JB-GDL-JOB1 bamboo_shortPlanName=Getdown DEVELOP Launchers bamboo_repository_46497929_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_planRepository_name=Jalview Git LOGNAME=bamboo bamboo_buildNumber=61 PWD=/ bamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse bamboo_repository_46497929_branch_name=develop bamboo_shortJobName=Default Job bamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GDL-JOB1-61 bamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git SHELL=/bin/bash bamboo_repository_46497929_previous_revision_number=0e2404da165d38cb1dd9928c1680273e1f65ad2a bamboo_agentId=196609 bamboo_planName=Jalview Builds - Getdown DEVELOP Launchers bamboo_shortPlanKey=GDL bamboo_shortJobKey=JOB1 bamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk bamboo_planRepository_revision=839b67dfeae7dc17cc31bfd9035f70b22655995b bamboo_repository_46497929_git_username= bamboo_buildTimeStamp=2024-09-18T03:02:28.730+01:00 bamboo_repository_previous_revision_number=0e2404da165d38cb1dd9928c1680273e1f65ad2a bamboo_repository_46497929_revision_number=839b67dfeae7dc17cc31bfd9035f70b22655995b bamboo_repository_git_branch=develop bamboo_buildResultKey=JB-GDL-JOB1-61 bamboo_repository_branch_name=develop bamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Launchers - Default Job bamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11 bamboo_planRepository_1_revision=839b67dfeae7dc17cc31bfd9035f70b22655995b SHLVL=1 bamboo_CHANNEL=DEVELOP 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/ 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=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_branchDisplayName=develop bamboo_repository_46497929_name=Jalview Git 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_plan_storageTag=plan-46301457 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_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_repository_46497929_git_branch=develop 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_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1 bamboo_planKey=JB-GDL bamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_planRepository_username= 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 |
| 18-Sep-2024 03:12:50 | |
| 18-Sep-2024 03:12:50 | > Configure project : |
| 18-Sep-2024 03:12:50 | Using properties from file './utils/channels/default/channel_gradle.properties' |
| 18-Sep-2024 03:12:50 | JALVIEW_VERSION is set to '2.11.4.0' |
| 18-Sep-2024 03:12:50 | HEADLESS BUILD |
| 18-Sep-2024 03:12:50 | J2S ENABLED |
| 18-Sep-2024 03:12:50 | Using a BUILD profile. |
| 18-Sep-2024 03:12:50 | eclipseDir exists |
| 18-Sep-2024 03:12:51 | |
| 18-Sep-2024 03:12:51 | > Task :clean |
| 18-Sep-2024 03:12:51 | > Task :cleanPackageDir |
| 18-Sep-2024 03:12:51 | > Task :getdownImagesCopy |
| 18-Sep-2024 03:12:51 | > Task :getdownImagesProcess |
| 18-Sep-2024 03:12:51 | > Task :getdownImages |
| 18-Sep-2024 03:12:54 | > Task :copyHelp |
| 18-Sep-2024 03:12:59 | > Task :buildIndices |
| 18-Sep-2024 03:12:59 | > Task :copyResources |
| 18-Sep-2024 03:12:59 | > Task :copyChannelResources |
| 18-Sep-2024 03:12:59 | |
| 18-Sep-2024 03:12:59 | > Task :createBuildProperties |
| 18-Sep-2024 03:12:59 | Execution optimizations have been disabled for task ':createBuildProperties' to ensure correctness due to the following reasons: |
| 18-Sep-2024 03:12:59 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:12:59 | |
| 18-Sep-2024 03:12:59 | > Task :buildResources |
| 18-Sep-2024 03:13:00 | > Task :copyDocs |
| 18-Sep-2024 03:13:00 | |
| 18-Sep-2024 03:13:00 | > Task :convertMdFiles |
| 18-Sep-2024 03:13:00 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1/build/resources/doc_build/doc/README-DMG_creation.html |
| 18-Sep-2024 03:13:00 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1/build/resources/doc_build/doc/releaseprocess.html |
| 18-Sep-2024 03:13:00 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1/build/resources/doc_build/doc/README-DMG_background_image_creation.html |
| 18-Sep-2024 03:13:00 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1/build/resources/doc_build/doc/building.html |
| 18-Sep-2024 03:13:00 | Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1/build/resources/doc_build/doc/jalview-projects.html |
| 18-Sep-2024 03:13:00 | |
| 18-Sep-2024 03:13:00 | > Task :releasesTemplates |
| 18-Sep-2024 03:13:00 | Execution optimizations have been disabled for task ':releasesTemplates' to ensure correctness due to the following reasons: |
| 18-Sep-2024 03:13:00 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:00 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:00 | Stripping rc/test/etc for 2_11_4_0 |
| 18-Sep-2024 03:13:00 | Looking in /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1/help/markdown/whatsnew/whatsnew-2_11_4_0.md |
| 18-Sep-2024 03:13:00 | |
| 18-Sep-2024 03:13:00 | > Task :prepare |
| 18-Sep-2024 03:13:02 | |
| 18-Sep-2024 03:13:02 | > Task :compileJava |
| 18-Sep-2024 03:13:02 | Setting target compatibility to 11 |
| 18-Sep-2024 03:13:11 | Note: Some input files use or override a deprecated API. |
| 18-Sep-2024 03:13:11 | Note: Recompile with -Xlint:deprecation for details. |
| 18-Sep-2024 03:13:11 | Note: Some input files use unchecked or unsafe operations. |
| 18-Sep-2024 03:13:11 | Note: Recompile with -Xlint:unchecked for details. |
| 18-Sep-2024 03:13:12 | |
| 18-Sep-2024 03:13:12 | > Task :processResources |
| 18-Sep-2024 03:13:12 | Execution optimizations have been disabled for task ':processResources' to ensure correctness due to the following reasons: |
| 18-Sep-2024 03:13:12 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:12 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:12 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:12 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:12 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:12 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:12 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:12 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:12 | |
| 18-Sep-2024 03:13:12 | > Task :classes |
| 18-Sep-2024 03:13:13 | |
| 18-Sep-2024 03:13:13 | > Task :compileLinkCheck |
| 18-Sep-2024 03:13:13 | Execution optimizations have been disabled for task ':compileLinkCheck' to ensure correctness due to the following reasons: |
| 18-Sep-2024 03:13:13 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:13 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:13 | - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-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. |
| 18-Sep-2024 03:13:15 | |
| 18-Sep-2024 03:13:15 | > Task :linkCheck |
| 18-Sep-2024 03:13:15 | Checking help file links |
| 18-Sep-2024 03:15:21 | |
| 18-Sep-2024 03:15:21 | Results: |
| 18-Sep-2024 03:15:21 | 159 distinct help targets |
| 18-Sep-2024 03:15:21 | 159 help mappings |
| 18-Sep-2024 03:15:21 | 0 invalid targets |
| 18-Sep-2024 03:15:21 | 32 unused targets |
| 18-Sep-2024 03:15:21 | uniprotfetcher: html/features/uniprotsequencefetcher.html |
| 18-Sep-2024 03:15:21 | overviewprefs: html/features/preferences.html#overview |
| 18-Sep-2024 03:15:21 | cdnafeatures: html/features/codingfeatures.html |
| 18-Sep-2024 03:15:21 | startupprefs: html/features/preferences.html#startup |
| 18-Sep-2024 03:15:21 | ensemblfetch: html/features/ensemblsequencefetcher.html |
| 18-Sep-2024 03:15:21 | io.modellerpir: html/io/modellerpir.html |
| 18-Sep-2024 03:15:21 | structureandpaefromfile: html/features/structurechooser.html#loadfromfile |
| 18-Sep-2024 03:15:21 | pdbmcviewer: html/features/pdbviewer.html |
| 18-Sep-2024 03:15:21 | workingwithpae: html/features/paematrices.html |
| 18-Sep-2024 03:15:21 | groovy.colours: html/features/groovy.html#groovyColours |
| 18-Sep-2024 03:15:21 | seqmappings: html/features/seqmappings.html |
| 18-Sep-2024 03:15:21 | uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts |
| 18-Sep-2024 03:15:21 | splitframe.mirrorfonts: html/features/splitView.html#mirror |
| 18-Sep-2024 03:15:21 | subtMatrices.pam250: html/calculations/scorematrices.html#pam250 |
| 18-Sep-2024 03:15:21 | search: html/features/search.html |
| 18-Sep-2024 03:15:21 | viewingpdbs.reps: html/features/viewingpdbs.html#viewreps |
| 18-Sep-2024 03:15:21 | alformats: html/io/fileformats.html |
| 18-Sep-2024 03:15:21 | strucprefs: html/features/preferences.html#structure |
| 18-Sep-2024 03:15:21 | siftsmapping: html/features/siftsmapping.html |
| 18-Sep-2024 03:15:21 | chimera.annotxfer: html/features/chimera.html#annotxfer |
| 18-Sep-2024 03:15:21 | pdbfts: html/features/pdbsequencefetcher.html#pdbfts |
| 18-Sep-2024 03:15:21 | newkeys: html/features/newkeystrokes.html |
| 18-Sep-2024 03:15:21 | importvcf.attribs: html/features/importvcf.html#attribs |
| 18-Sep-2024 03:15:21 | seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature |
| 18-Sep-2024 03:15:21 | structuresvia3dbeacons: html/features/structurechooser.html#3dbeaconssearch |
| 18-Sep-2024 03:15:21 | jalarchive: html/features/jalarchive.html |
| 18-Sep-2024 03:15:21 | newsreader: html/webServices/newsreader.html |
| 18-Sep-2024 03:15:21 | jalviewcltool: html/features/commandline.html#script |
| 18-Sep-2024 03:15:21 | popMenuAddref: html/menus/popupMenu.html#addrefannot |
| 18-Sep-2024 03:15:21 | splitframe.virtualfeats: html/features/splitView.html#virtualfeats |
| 18-Sep-2024 03:15:21 | paematrixformat: html/io/paematrixformat.html |
| 18-Sep-2024 03:15:21 | overview: html/features/overview.html |
| 18-Sep-2024 03:15:21 | 0 invalid map urls |
| 18-Sep-2024 03:15:21 | 0 invalid image attributes |
| 18-Sep-2024 03:15:21 | 508 internal href links (110 with anchors) |
| 18-Sep-2024 03:15:21 | 0 invalid internal href links |
| 18-Sep-2024 03:15:21 | 0 invalid internal anchor links |
| 18-Sep-2024 03:15:21 | 113 external href links |
| 18-Sep-2024 03:15:21 | External links not verified as internet not available |
| 18-Sep-2024 03:15:21 | *** Success *** |
| 18-Sep-2024 03:15:22 | |
| 18-Sep-2024 03:15:22 | > Task :jar |
| 18-Sep-2024 03:15:24 | > Task :syncJars |
| 18-Sep-2024 03:15:24 | > Task :makeDist |
| 18-Sep-2024 03:15:24 | > Task :getdownWebsiteBuild |
| 18-Sep-2024 03:15:26 | |
| 18-Sep-2024 03:15:26 | > Task :getdownDigest |
| 18-Sep-2024 03:15:26 | Generating digest file './build/website/docroot/getdown/default/11/digest.txt'... |
| 18-Sep-2024 03:15:26 | Generating digest file './build/website/docroot/getdown/default/11/digest2.txt'... |
| 18-Sep-2024 03:15:26 | |
| 18-Sep-2024 03:15:26 | > Task :getdown |
| 18-Sep-2024 03:15:26 | |
| 18-Sep-2024 03:15:26 | Deprecated Gradle features were used in this build, making it incompatible with Gradle 8.0. |
| 18-Sep-2024 03:15:26 | |
| 18-Sep-2024 03:15:26 | You can use '--warning-mode all' to show the individual deprecation warnings and determine if they come from your own scripts or plugins. |
| 18-Sep-2024 03:15:26 | |
| 18-Sep-2024 03:15:26 | See https://docs.gradle.org/7.4.2/userguide/command_line_interface.html#sec:command_line_warnings |
| 18-Sep-2024 03:15:26 | |
| 18-Sep-2024 03:15:26 | Execution optimizations have been disabled for 4 invalid unit(s) of work during this build to ensure correctness. |
| 18-Sep-2024 03:15:26 | Please consult deprecation warnings for more details. |
| 18-Sep-2024 03:15:26 | |
| 18-Sep-2024 03:15:26 | BUILD SUCCESSFUL in 2m 37s |
| 18-Sep-2024 03:15:26 | 21 actionable tasks: 21 executed |
| 18-Sep-2024 03:15:26 | 2024/09/18 03:15:24:989 WARNING Starting without install4j classes |
| 18-Sep-2024 03:15:26 | 2024/09/18 03:15:25:572 WARNING Starting without install4j classes |
| 18-Sep-2024 03:15:26 | Finished task 'Jalview Develop Launcher JVL (Java 11)' with result: Success |
| 18-Sep-2024 03:15:26 | Starting task 'Copy JVL file and produce link in HTML' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' |
| 18-Sep-2024 03:15:26 | Beginning to execute external process for build 'Jalview Builds - Getdown DEVELOP Launchers - Default Job #61 (JB-GDL-JOB1-61)' ... running command line: /srv/bamboo/bamboo-home/temp/JB-GDL-JOB1-61-ScriptBuildTask-4224989929023619676.sh ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1 ... using extra environment variables: bamboo_planRepository_1_branch=develop bamboo_dependency_parent_0=JB-GDB-690 bamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr bamboo_dependency_parent_total=1 bamboo_planRepository_1_branchDisplayName=develop bamboo_repository_revision_number=839b67dfeae7dc17cc31bfd9035f70b22655995b bamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDL-JOB1-61 bamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1 bamboo_planRepository_1_name=Jalview Git bamboo_buildKey=JB-GDL-JOB1 bamboo_shortPlanName=Getdown DEVELOP Launchers bamboo_repository_46497929_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_planRepository_name=Jalview Git bamboo_buildNumber=61 bamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse bamboo_repository_46497929_branch_name=develop bamboo_shortJobName=Default Job bamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GDL-JOB1-61 bamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_repository_46497929_previous_revision_number=0e2404da165d38cb1dd9928c1680273e1f65ad2a bamboo_agentId=196609 bamboo_planName=Jalview Builds - Getdown DEVELOP Launchers bamboo_shortPlanKey=GDL bamboo_shortJobKey=JOB1 bamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk bamboo_planRepository_revision=839b67dfeae7dc17cc31bfd9035f70b22655995b bamboo_repository_46497929_git_username= bamboo_buildTimeStamp=2024-09-18T03:02:28.730+01:00 bamboo_repository_previous_revision_number=0e2404da165d38cb1dd9928c1680273e1f65ad2a bamboo_repository_46497929_revision_number=839b67dfeae7dc17cc31bfd9035f70b22655995b bamboo_repository_git_branch=develop bamboo_buildResultKey=JB-GDL-JOB1-61 bamboo_repository_branch_name=develop bamboo_buildPlanName=Jalview Builds - Getdown DEVELOP Launchers - Default Job bamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11 bamboo_planRepository_1_revision=839b67dfeae7dc17cc31bfd9035f70b22655995b bamboo_CHANNEL=DEVELOP 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-GDL -Pbamboo_buildResultsUrl=${bamboo_buildResultsUrl} -Pbamboo_buildResultKey=${bamboo_buildResultKey} clean getdown bamboo_buildFailed=false bamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk 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_branchDisplayName=develop bamboo_repository_46497929_name=Jalview Git bamboo_planRepository_1_type=gitv2 bamboo_planRepository_branchName=develop bamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11 bamboo_capability_system_builderivy_Ivy=/usr bamboo_plan_storageTag=plan-46301457 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 bamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache bamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_repository_46497929_git_branch=develop 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_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDL-JOB1 bamboo_planKey=JB-GDL bamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git bamboo_planRepository_username= bamboo_planRepository_1_branchName=develop |
| 18-Sep-2024 03:15:26 | Finished task 'Copy JVL file and produce link in HTML' with result: Success |
| 18-Sep-2024 03:15:26 | Running post build plugin 'NCover Results Collector' |
| 18-Sep-2024 03:15:26 | Running post build plugin 'Artifact Copier' |
| 18-Sep-2024 03:15:26 | Publishing an artifact: getdown |
| 18-Sep-2024 03:15:26 | Finished publishing of artifact Shared artifact: [getdown], pattern: [**/*] anchored at: [build/website/docroot/getdown/default/11] in 96.89 ms |
| 18-Sep-2024 03:15:26 | Running post build plugin 'Artifactory Release Management Staging' |
| 18-Sep-2024 03:15:26 | Running post build plugin 'Artifactory Build Info Copier' |
| 18-Sep-2024 03:15:26 | Running post build plugin 'Artifactory Gradle Properties Info Copier' |
| 18-Sep-2024 03:15:26 | Running post build plugin 'npm Cache Cleanup' |
| 18-Sep-2024 03:15:26 | Running post build plugin 'Clover Results Collector' |
| 18-Sep-2024 03:15:26 | Running post build plugin 'Docker Container Cleanup' |
| 18-Sep-2024 03:15:26 | Finalising the build... |
| 18-Sep-2024 03:15:26 | Stopping timer. |
| 18-Sep-2024 03:15:26 | Build JB-GDL-JOB1-61 completed. |
| 18-Sep-2024 03:15:26 | Running on server: post build plugin 'NCover Results Collector' |
| 18-Sep-2024 03:15:26 | Running on server: post build plugin 'Build Hanging Detection Configuration' |
| 18-Sep-2024 03:15:26 | Running on server: post build plugin 'Clover Delta Calculator' |
| 18-Sep-2024 03:15:26 | Running on server: post build plugin 'Maven Dependencies Postprocessor' |
| 18-Sep-2024 03:15:26 | All post build plugins have finished |
| 18-Sep-2024 03:15:26 | Generating build results summary... |
| 18-Sep-2024 03:15:26 | Saving build results to disk... |
| 18-Sep-2024 03:15:26 | Logging substituted variables... |
| 18-Sep-2024 03:15:26 | Indexing build results... |
| 18-Sep-2024 03:15:26 | Finished building JB-GDL-JOB1-61. |