simple 15-Nov-2024 00:08:36 Build Jalview Builds - Getdown TEST_RELEASE Channel - Default Job #15 (JB-GTC-JOB1-15) started building on agent Default Agent simple 15-Nov-2024 00:08:36 simple 15-Nov-2024 00:08:36 Build working directory is /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 simple 15-Nov-2024 00:08:36 Executing build Jalview Builds - Getdown TEST_RELEASE Channel - Default Job #15 (JB-GTC-JOB1-15) simple 15-Nov-2024 00:08:36 Starting task 'Checkout Default Repository' of type 'com.atlassian.bamboo.plugins.vcs:task.vcs.checkout' simple 15-Nov-2024 00:08:36 Checking out into /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 simple 15-Nov-2024 00:08:36 Updating source code to revision: 544bd63f8e2c0122da4f309bdc415162fc1da737 simple 15-Nov-2024 00:08:36 Fetching 'refs/heads/develop' from 'http://source.jalview.org/git/jalview.git'. simple 15-Nov-2024 00:08:36 Checking out revision 544bd63f8e2c0122da4f309bdc415162fc1da737. simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/2_5_1_rna_merge does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-1260_droldan does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-1375_ncbiclient does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-1562_help-documentation-system-refactoring does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-1601-direct-jpred4-rest-service does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-2739_2.10.2b1 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3253-applet-113cc13-2019.08.28-js-optimizations does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3253-applet-SwingJS-omnibus does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3253-applet-test does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3253_applet_omnibus-BH does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3315_getdown_1_8_6_update does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3368_JavaScript_colors does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3437_load_project does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3866_RNAalifold-slivka-client does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3878_web_services_overhaul does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3878_web_services_overhaul_no_clover does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3927_ws_preferences_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-4152-typed-singleton-provider does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-4154-platform-specific-constants does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JAL-429_phylip-file-support does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/JalScape/JAL-1332 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/20190123 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3445_support_for_BSML does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3453-TestNG-Desktop-getInstanceOnly does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/JAL-3560-bh-temp does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/JAL-3560_bob_temp does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/JAL-3563-sync-TestNG-test-bob does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/demo does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/develop does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/develop-JAL-3559 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/develop-updated-gradle does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/develop.JAL-3445-BSML-reader does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.SequenceFeatureAsync does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.ctrlDown does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/develop_j2s_v3_2_9_j11 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/gradle-minimal does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/gradle_with_goomph does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/gradle_with_inline_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/jim/JAL-3253-JAL-3418 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-JS/update_java2script does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Jalview-jJS/JAL-3253-applet-JAL-3436 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Pre_R29_develop does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/RNAalifold does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_3_BuildFix does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_4_branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_5_Branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_6_Branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_7_Branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_8_1_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_8_2_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_8_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_9_0b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Release_2_9_Branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/Tcoffee_JAL-1065 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/VamJalview does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/alpha/JAL-3066_Jalview_212_slivka-integration does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/alpha/JAL-3362_Jalview_212_alpha does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/alpha/JAL-3899_deuniquify_refactor does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/alpha/Jalview_212_test_merged_buildgradle does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/alpha/merge_212_JalviewJS_2112 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/arnaud/JAL-3929_spike does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-1644_Finder-logic-improvement does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-1712annotationsWithFlanking does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-1988_quit_window_focus does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-2023_cdsProjectError does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-2339helpBullets does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-2541_JAL-2823_cutAndRelocateFeatures_needs_merge_from_211_release does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-2791selectVisibleFeatures does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-2848resetColoursAmendFeatures does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-2876byLabelThreshold does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-2907stockholmGapChar does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3003epsWithSelection does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3059groupBorder does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3083cancelAnnotationColour does not point to a valid object! simple 15-Nov-2024 00:08:36 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! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3178nonposFeatureExport_take2 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3183groupColourOverwritten does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3184restoreGroupVisibility does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3195idResolution does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3201groupClustal does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3202zerosInProfile does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3212columnSelectionWithHidden does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3215hydroColours does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9-2 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3288_override_all_JInternalFrame_with_Classic_JInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3365_failing_per_sequence_ss_tests does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3473_SpinnerNumberModel_causing_IllegalArgumentException does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3487-splash-JS does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3489mapChainsFromFile does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3490findSpanHiddenGaps does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3502wrappedScale does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-360+JAL-3975_keyboard_input_lost_after_dialog does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3609_HiDPI_in_Linux does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-360_JAL-3984_F2_stops_working_after_some_dialogs does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3613emblCDSTracking does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3633_Allow_HTTPS_proxy_configuration_for_getdown does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3648graphDragRelease does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3702_Drag_and_drop_miscalculation_in_linux_HiDPI does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3705saveProteinId does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3706virtualStopCodon does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3725overlappingVirtualFeatures does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3744_read_gzip_file_in_jalviewjs does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3751_revisited does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3751overlappingCDS does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3761_locateInFromTo does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3774_splitFrameFinder does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3779setGroupProperties does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3788_autoOverviewClustal does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3807_jpred-with-slivka does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3809_ws_params_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3810_annotation_ws_stopping_abruptly does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3849_aacon-parameters does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3972_VAqua_for_Java11 does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-3975_keyboard_input_stops_working_after_create_sequence_feature does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4026_fix_failingSeqPanel does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4041_no_3dbeacons_when_no_uniprotseq does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4041_problems_with_3dbeacons_search does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4072_zip_slip_vulnerability_in_getdown does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4073_pfam_website_being_decommissioned does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4118_Fix_QuitHandlerTest does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4153_JvCacheableInputBoxTest_flaky_on_build_server does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4225_rnaalifold_structure_not_recognised_as_such does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4229_varna_helix_mapping_offby1 does not point to a valid object! simple 15-Nov-2024 00:08:36 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! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4313-make-visible-annot-fix does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment does not point to a valid object! simple 15-Nov-2024 00:08:36 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! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4369_uniprot_in_jalviewJS does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4374_missing_colon_when_using_jalview_scheme_with_host_and_port does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/bug/JAL-4389-web-services-prefs-panel does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/cherry-pick/JAL-3621_to_Release_2_11_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/cherry-pick/JAL-3691_to_2.11.2_localeSafeFileImport does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/cherrypicks/JAL-3660_JAL-3561_JAL-3662_cli_outputformat does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/codereviews/JAL-1990_IProgressIndicator_jalview.structure does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/development/JAL-3878_ws_overhaul_3_merged_with_2_12_Merged does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/development/Release_2_12_Branch does not point to a valid object! simple 15-Nov-2024 00:08:36 error: refs/remotes/origin/development/Release_2_12_Branch_JAL-4102_21126_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-1260_genbank_embl_flatfile_import_reloaded does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2087ensemblSpeciesAssist does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2422ChimeraX does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2611 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2674take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2738GeneLocus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2873ensemblSpeciesQuery does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles_features does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3081customAnnOrder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3117_overviewFocusAlignment does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3148structureColourSchemes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3187viewstyleFlags does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3190jalviewjsChimera does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3194_create_launcher_with_dynamic_memory_heap_setting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3251biotypedMappings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3364splitFrameImage does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3390hideUnmappedStructure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3400viewChainsMenu does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3442colourCaching does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3443findColorAsInt does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3469clinvarVCF does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3481_conservation_gap_threshold_preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3499featuresFileMotifs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3515-slivka-preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3686_slivka_client_js_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView_2.11.2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3730ensemblPingRetries does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3739_useFormFieldText does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_prototype_comms_for_jbrowse2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser_updated_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3874_add_source_jars_to_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3982_mouseover_highlighting_viaJAL-3860 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4227_Rfam2020_sslines does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4392_consensus_secondary_structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-819undeleteAutoannotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/r2_11_2/JAL-3808_gff2_exonerate does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499_MEGA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1601_jpred4rest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4172_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4173_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON-File-format does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1807java2Script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1953_Archeopteryx_with_Jalview_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1965_JAL-753_JAL-1427_relaxedIdMatch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1978_msagrid does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2040_JAL-2137_phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2055alternateFeatureColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2094_colourInterface does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2103 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration_updated does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2253ensemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2351jmolExchange does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2476dropFiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-250_hideredundantseqs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport2_11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3010ontologyFeatureSettings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3020attributeValuePrompting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3085_gnupdf does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3417_sdppred_calcs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-345_selectFromFind does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3638_jumptonextindel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3641_phredfromfastq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4071_visibleFeaturesCounter does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4159_adjustable_gapparams_in_nw does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4220_showSymbolsBelowConsensusThresholdAsGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-629_with_threads_NOT_PASSING_TESTS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-666_exportoverview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-722alignmentProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-728alternateQuality does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845linkedProteinDnaEditing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845splitPaneMergeDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer_statistics does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer_merge_JAL-1950 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2/JAL-3922_jmolSelectionHighlighting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3829_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3929_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r_2_11_2_JAL-819_undeleteAutoAnnotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/flakytests/JAL-4026_AlignViewportWaitforcalculations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/hack/JAL-1617_workaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3289_new_launch_screens does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3384_Redirect_stdout_and_stdin_to_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_Improved_DMG_background_image_beta_strand does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_make_DMG_background_image_relative_path_in_DS_Store does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_FlatLaf_3.2.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_GTK_look_and_feel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3438_eclipse_java_code_formatting_as_a_gradle_task does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_BG_and_UoD_logos_added does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_added_subtle_grey_tesselating_logos_to_getdown_splashscreen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3728_icons_for_independent_jframes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3790_enable_copy_to_clipboard_of_getdown_splashscreen_text does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3826_gradle_configuration_for_intellij_idea does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_add_dependencies_reported_by_gradle_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_some_attempts_to_set_gradle_and_groovy_versions does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8_updated_jslib does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4054_Upgrade_to_install4j10 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4064_M1_native_JRE_bundled_in_DMG does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4245-return-null-from-getRootDataset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-toc does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jalview-headless does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jims/work_on_2_12/JAL-3664_hmmer_ux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/CipresWebservices does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer_tabbedsupport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/forester does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Ben_trying_out_JSdevelop_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3187_JAL-3010 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3210_developToJSDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3285_mchmmer_with_211_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-845_JAL-1640 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Jalview-JS/develop_feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merged_2_11_2_0_to_2_12 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmm/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4139-multi-harmony-patch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-task-execution-update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/Release_2_12_ws_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-1236_customClustalHeader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2694_maptoallchainsworkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2755_UniprotEnsemblSubnameWorkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2914_relaxedGFFpragmas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2996_JAL-3053_tildeBracketsPipesEtcAsGapChars does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3562_fixAlignmentPanelTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3584_cherrypickto-JAL-3676_2.11.1.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3626_gradle_refinementsfrom2111 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3794_X_is_a_dna_rna_base_too does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3821_ena_rna_moltype does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3847_gradleV7andV8Patches does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4079_scalability_bottlenecks does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4155_IdCanvas_getAlignPanel_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4195_calcWorker_for_2_11_2_6 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4216_negative_startend does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4222_quit_with_gui_export_cli_args does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4232-disable-unavailable-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/r2_11_2_6/JAL-2350_embl_xrefs_from_uniprot_version_consistency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_11_2_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_9_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/reviews/features/JAL-2136_phyre2_integration_withJims does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-1950_hmmer3client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-2778_changelookandfeelOpaqueWindows does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3548_exampleRestServer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3622_Scanner_swingjs_J212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3690_with_patched_j2s_v3_2_9_plugin does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3753_helphtmldupes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3781_2d_scaling does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4047/JAL-4048_columns_in_sequenceID does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4055_retire_JDesktop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/clinvar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/javier_noseqhack does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims/Release_2_12_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims_dec_2022_212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/t_sne_paeMatrix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/JAL-4113_javafx_with_Jalview_MSA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/kira does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/koen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/phyre does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/thomas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/toch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3042_remove_SimpleDocument_dependency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3089annLabelsPopup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3130_Java_11_investigations-Ben-2-CHANGES_TO_DEPRECATED_CALLS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3193mergeEnsemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3210_ben_testing_jalviewJS_building does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3252_adapt_getdown_to_unpack_tgz_resource_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3281_Automatic_installers_download_table_generation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3349_Support_cli_JRE_arguments_through_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3594_getdown_launcher_style does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3789_configurable_j2s_file_for_headless_transpile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3805_Remove_Old_Jalview_Uninstaller_application does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3911_getdown_improvements does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_GA4_cherry_picked does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_Plausible does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_firebase_test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/r2_11_2/JAL-3871_Jmol_dedup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3067_slivkaprep does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3070_wsinterfaces does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-2422_testing_on_linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-3416_setOpaque_true_test_with_JalviewInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testing/JAL-3577_jalviewversion_autoset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testpaches/JAL-2719_JAL-1264_testfails does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng_2022-01-28 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3949_update_code_to_use_log4j-2_directly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-4108_212_testng_jar_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/vamsasDemo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Archived_Release_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_10_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_11_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_4_0 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_5_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_6_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/2_5_1_rna_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1260_droldan does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1375_ncbiclient does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1562_help-documentation-system-refactoring does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1601-direct-jpred4-rest-service does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-2739_2.10.2b1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-113cc13-2019.08.28-js-optimizations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-SwingJS-omnibus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253_applet_omnibus-BH does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3315_getdown_1_8_6_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3368_JavaScript_colors does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3437_load_project does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3866_RNAalifold-slivka-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_web_services_overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_web_services_overhaul_no_clover does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3927_ws_preferences_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-4152-typed-singleton-provider does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-4154-platform-specific-constants does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-429_phylip-file-support does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JalScape/JAL-1332 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/20190123 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3445_support_for_BSML does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3453-TestNG-Desktop-getInstanceOnly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3560-bh-temp does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3560_bob_temp does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3563-sync-TestNG-test-bob does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/demo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop-JAL-3559 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop-updated-gradle does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3445-BSML-reader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.SequenceFeatureAsync does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.ctrlDown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop_j2s_v3_2_9_j11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle-minimal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle_with_goomph does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle_with_inline_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/jim/JAL-3253-JAL-3418 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/update_java2script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-jJS/JAL-3253-applet-JAL-3436 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Pre_R29_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/RNAalifold does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_3_BuildFix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_4_branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_5_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_6_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_7_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_1_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_2_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_9_0b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_9_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Tcoffee_JAL-1065 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/VamJalview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3066_Jalview_212_slivka-integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3362_Jalview_212_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3899_deuniquify_refactor does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/Jalview_212_test_merged_buildgradle does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/merge_212_JalviewJS_2112 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/arnaud/JAL-3929_spike does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1644_Finder-logic-improvement does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1712annotationsWithFlanking does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1988_quit_window_focus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2023_cdsProjectError does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2339helpBullets does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2541_JAL-2823_cutAndRelocateFeatures_needs_merge_from_211_release does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2791selectVisibleFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2848resetColoursAmendFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2876byLabelThreshold does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2907stockholmGapChar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3003epsWithSelection does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3059groupBorder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3083cancelAnnotationColour does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3178nonposFeatureExport_take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3183groupColourOverwritten does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3184restoreGroupVisibility does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3195idResolution does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3201groupClustal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3202zerosInProfile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3212columnSelectionWithHidden does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3215hydroColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3288_override_all_JInternalFrame_with_Classic_JInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3365_failing_per_sequence_ss_tests does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3473_SpinnerNumberModel_causing_IllegalArgumentException does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3487-splash-JS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3489mapChainsFromFile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3490findSpanHiddenGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3502wrappedScale does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-360+JAL-3975_keyboard_input_lost_after_dialog does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3609_HiDPI_in_Linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-360_JAL-3984_F2_stops_working_after_some_dialogs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3613emblCDSTracking does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3633_Allow_HTTPS_proxy_configuration_for_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3648graphDragRelease does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3702_Drag_and_drop_miscalculation_in_linux_HiDPI does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3705saveProteinId does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3706virtualStopCodon does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3725overlappingVirtualFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3744_read_gzip_file_in_jalviewjs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3751_revisited does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3751overlappingCDS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3761_locateInFromTo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3774_splitFrameFinder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3779setGroupProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3788_autoOverviewClustal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3807_jpred-with-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3809_ws_params_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3810_annotation_ws_stopping_abruptly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3849_aacon-parameters does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3972_VAqua_for_Java11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3975_keyboard_input_stops_working_after_create_sequence_feature does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4026_fix_failingSeqPanel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4041_no_3dbeacons_when_no_uniprotseq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4041_problems_with_3dbeacons_search does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4072_zip_slip_vulnerability_in_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4073_pfam_website_being_decommissioned does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4118_Fix_QuitHandlerTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4153_JvCacheableInputBoxTest_flaky_on_build_server does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4225_rnaalifold_structure_not_recognised_as_such does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4229_varna_helix_mapping_offby1 does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4313-make-visible-annot-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4369_uniprot_in_jalviewJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4374_missing_colon_when_using_jalview_scheme_with_host_and_port does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4389-web-services-prefs-panel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherry-pick/JAL-3621_to_Release_2_11_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherry-pick/JAL-3691_to_2.11.2_localeSafeFileImport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherrypicks/JAL-3660_JAL-3561_JAL-3662_cli_outputformat does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/codereviews/JAL-1990_IProgressIndicator_jalview.structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/JAL-3878_ws_overhaul_3_merged_with_2_12_Merged does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/Release_2_12_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/Release_2_12_Branch_JAL-4102_21126_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-1260_genbank_embl_flatfile_import_reloaded does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2087ensemblSpeciesAssist does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2422ChimeraX does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2611 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2674take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2738GeneLocus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2873ensemblSpeciesQuery does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles_features does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3081customAnnOrder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3117_overviewFocusAlignment does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3148structureColourSchemes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3187viewstyleFlags does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3190jalviewjsChimera does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3194_create_launcher_with_dynamic_memory_heap_setting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3251biotypedMappings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3364splitFrameImage does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3390hideUnmappedStructure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3400viewChainsMenu does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3442colourCaching does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3443findColorAsInt does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3469clinvarVCF does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3481_conservation_gap_threshold_preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3499featuresFileMotifs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3515-slivka-preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3686_slivka_client_js_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView_2.11.2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3730ensemblPingRetries does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3739_useFormFieldText does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_prototype_comms_for_jbrowse2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser_updated_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3874_add_source_jars_to_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3982_mouseover_highlighting_viaJAL-3860 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4227_Rfam2020_sslines does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4392_consensus_secondary_structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-819undeleteAutoannotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/r2_11_2/JAL-3808_gff2_exonerate does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499_MEGA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1601_jpred4rest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4172_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4173_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON-File-format does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1807java2Script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1953_Archeopteryx_with_Jalview_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1965_JAL-753_JAL-1427_relaxedIdMatch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1978_msagrid does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2040_JAL-2137_phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2055alternateFeatureColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2094_colourInterface does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2103 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration_updated does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2253ensemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2351jmolExchange does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2476dropFiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-250_hideredundantseqs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport2_11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3010ontologyFeatureSettings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3020attributeValuePrompting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3085_gnupdf does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3417_sdppred_calcs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-345_selectFromFind does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3638_jumptonextindel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3641_phredfromfastq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4071_visibleFeaturesCounter does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4159_adjustable_gapparams_in_nw does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4220_showSymbolsBelowConsensusThresholdAsGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-629_with_threads_NOT_PASSING_TESTS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-666_exportoverview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-722alignmentProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-728alternateQuality does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845linkedProteinDnaEditing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845splitPaneMergeDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer_statistics does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer_merge_JAL-1950 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2/JAL-3922_jmolSelectionHighlighting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3829_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3929_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r_2_11_2_JAL-819_undeleteAutoAnnotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/flakytests/JAL-4026_AlignViewportWaitforcalculations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/hack/JAL-1617_workaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3289_new_launch_screens does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3384_Redirect_stdout_and_stdin_to_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_Improved_DMG_background_image_beta_strand does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_make_DMG_background_image_relative_path_in_DS_Store does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_FlatLaf_3.2.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_GTK_look_and_feel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3438_eclipse_java_code_formatting_as_a_gradle_task does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_BG_and_UoD_logos_added does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_added_subtle_grey_tesselating_logos_to_getdown_splashscreen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3728_icons_for_independent_jframes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3790_enable_copy_to_clipboard_of_getdown_splashscreen_text does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3826_gradle_configuration_for_intellij_idea does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_add_dependencies_reported_by_gradle_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_some_attempts_to_set_gradle_and_groovy_versions does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8_updated_jslib does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4054_Upgrade_to_install4j10 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4064_M1_native_JRE_bundled_in_DMG does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4245-return-null-from-getRootDataset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-toc does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jalview-headless does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jims/work_on_2_12/JAL-3664_hmmer_ux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/CipresWebservices does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer_tabbedsupport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/forester does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Ben_trying_out_JSdevelop_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3187_JAL-3010 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3210_developToJSDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3285_mchmmer_with_211_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-845_JAL-1640 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Jalview-JS/develop_feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merged_2_11_2_0_to_2_12 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmm/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4139-multi-harmony-patch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-task-execution-update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/Release_2_12_ws_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-1236_customClustalHeader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2694_maptoallchainsworkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2755_UniprotEnsemblSubnameWorkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2914_relaxedGFFpragmas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2996_JAL-3053_tildeBracketsPipesEtcAsGapChars does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3562_fixAlignmentPanelTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3584_cherrypickto-JAL-3676_2.11.1.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3626_gradle_refinementsfrom2111 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3794_X_is_a_dna_rna_base_too does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3821_ena_rna_moltype does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3847_gradleV7andV8Patches does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4079_scalability_bottlenecks does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4155_IdCanvas_getAlignPanel_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4195_calcWorker_for_2_11_2_6 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4216_negative_startend does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4222_quit_with_gui_export_cli_args does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4232-disable-unavailable-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/r2_11_2_6/JAL-2350_embl_xrefs_from_uniprot_version_consistency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_11_2_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_9_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/reviews/features/JAL-2136_phyre2_integration_withJims does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-1950_hmmer3client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-2778_changelookandfeelOpaqueWindows does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3548_exampleRestServer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3622_Scanner_swingjs_J212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3690_with_patched_j2s_v3_2_9_plugin does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3753_helphtmldupes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3781_2d_scaling does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4047/JAL-4048_columns_in_sequenceID does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4055_retire_JDesktop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/clinvar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/javier_noseqhack does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims/Release_2_12_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims_dec_2022_212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/t_sne_paeMatrix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/JAL-4113_javafx_with_Jalview_MSA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/kira does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/koen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/phyre does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/thomas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/toch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3042_remove_SimpleDocument_dependency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3089annLabelsPopup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3130_Java_11_investigations-Ben-2-CHANGES_TO_DEPRECATED_CALLS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3193mergeEnsemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3210_ben_testing_jalviewJS_building does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3252_adapt_getdown_to_unpack_tgz_resource_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3281_Automatic_installers_download_table_generation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3349_Support_cli_JRE_arguments_through_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3594_getdown_launcher_style does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3789_configurable_j2s_file_for_headless_transpile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3805_Remove_Old_Jalview_Uninstaller_application does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3911_getdown_improvements does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_GA4_cherry_picked does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_Plausible does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_firebase_test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/r2_11_2/JAL-3871_Jmol_dedup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3067_slivkaprep does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3070_wsinterfaces does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-2422_testing_on_linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-3416_setOpaque_true_test_with_JalviewInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testing/JAL-3577_jalviewversion_autoset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testpaches/JAL-2719_JAL-1264_testfails does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng_2022-01-28 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3949_update_code_to_use_log4j-2_directly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-4108_212_testng_jar_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/vamsasDemo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Archived_Release_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_10_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_11_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_4_0 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_5_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_6_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/2_5_1_rna_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1260_droldan does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1375_ncbiclient does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1562_help-documentation-system-refactoring does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1601-direct-jpred4-rest-service does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-2739_2.10.2b1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-113cc13-2019.08.28-js-optimizations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-SwingJS-omnibus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253_applet_omnibus-BH does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3315_getdown_1_8_6_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3368_JavaScript_colors does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3437_load_project does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3866_RNAalifold-slivka-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_web_services_overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_web_services_overhaul_no_clover does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3927_ws_preferences_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-4152-typed-singleton-provider does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-4154-platform-specific-constants does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-429_phylip-file-support does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JalScape/JAL-1332 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/20190123 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3445_support_for_BSML does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3453-TestNG-Desktop-getInstanceOnly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3560-bh-temp does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3560_bob_temp does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3563-sync-TestNG-test-bob does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/demo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop-JAL-3559 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop-updated-gradle does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3445-BSML-reader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.SequenceFeatureAsync does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.ctrlDown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop_j2s_v3_2_9_j11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle-minimal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle_with_goomph does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle_with_inline_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/jim/JAL-3253-JAL-3418 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/update_java2script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-jJS/JAL-3253-applet-JAL-3436 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Pre_R29_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/RNAalifold does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_3_BuildFix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_4_branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_5_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_6_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_7_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_1_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_2_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_9_0b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_9_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Tcoffee_JAL-1065 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/VamJalview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3066_Jalview_212_slivka-integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3362_Jalview_212_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3899_deuniquify_refactor does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/Jalview_212_test_merged_buildgradle does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/merge_212_JalviewJS_2112 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/arnaud/JAL-3929_spike does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1644_Finder-logic-improvement does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1712annotationsWithFlanking does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1988_quit_window_focus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2023_cdsProjectError does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2339helpBullets does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2541_JAL-2823_cutAndRelocateFeatures_needs_merge_from_211_release does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2791selectVisibleFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2848resetColoursAmendFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2876byLabelThreshold does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2907stockholmGapChar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3003epsWithSelection does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3059groupBorder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3083cancelAnnotationColour does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3178nonposFeatureExport_take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3183groupColourOverwritten does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3184restoreGroupVisibility does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3195idResolution does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3201groupClustal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3202zerosInProfile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3212columnSelectionWithHidden does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3215hydroColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3288_override_all_JInternalFrame_with_Classic_JInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3365_failing_per_sequence_ss_tests does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3473_SpinnerNumberModel_causing_IllegalArgumentException does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3487-splash-JS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3489mapChainsFromFile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3490findSpanHiddenGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3502wrappedScale does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-360+JAL-3975_keyboard_input_lost_after_dialog does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3609_HiDPI_in_Linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-360_JAL-3984_F2_stops_working_after_some_dialogs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3613emblCDSTracking does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3633_Allow_HTTPS_proxy_configuration_for_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3648graphDragRelease does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3702_Drag_and_drop_miscalculation_in_linux_HiDPI does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3705saveProteinId does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3706virtualStopCodon does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3725overlappingVirtualFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3744_read_gzip_file_in_jalviewjs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3751_revisited does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3751overlappingCDS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3761_locateInFromTo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3774_splitFrameFinder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3779setGroupProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3788_autoOverviewClustal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3807_jpred-with-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3809_ws_params_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3810_annotation_ws_stopping_abruptly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3849_aacon-parameters does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3972_VAqua_for_Java11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3975_keyboard_input_stops_working_after_create_sequence_feature does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4026_fix_failingSeqPanel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4041_no_3dbeacons_when_no_uniprotseq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4041_problems_with_3dbeacons_search does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4072_zip_slip_vulnerability_in_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4073_pfam_website_being_decommissioned does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4118_Fix_QuitHandlerTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4153_JvCacheableInputBoxTest_flaky_on_build_server does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4225_rnaalifold_structure_not_recognised_as_such does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4229_varna_helix_mapping_offby1 does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4313-make-visible-annot-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4369_uniprot_in_jalviewJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4374_missing_colon_when_using_jalview_scheme_with_host_and_port does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4389-web-services-prefs-panel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherry-pick/JAL-3621_to_Release_2_11_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherry-pick/JAL-3691_to_2.11.2_localeSafeFileImport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherrypicks/JAL-3660_JAL-3561_JAL-3662_cli_outputformat does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/codereviews/JAL-1990_IProgressIndicator_jalview.structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/JAL-3878_ws_overhaul_3_merged_with_2_12_Merged does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/Release_2_12_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/Release_2_12_Branch_JAL-4102_21126_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-1260_genbank_embl_flatfile_import_reloaded does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2087ensemblSpeciesAssist does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2422ChimeraX does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2611 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2674take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2738GeneLocus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2873ensemblSpeciesQuery does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles_features does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3081customAnnOrder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3117_overviewFocusAlignment does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3148structureColourSchemes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3187viewstyleFlags does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3190jalviewjsChimera does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3194_create_launcher_with_dynamic_memory_heap_setting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3251biotypedMappings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3364splitFrameImage does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3390hideUnmappedStructure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3400viewChainsMenu does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3442colourCaching does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3443findColorAsInt does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3469clinvarVCF does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3481_conservation_gap_threshold_preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3499featuresFileMotifs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3515-slivka-preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3686_slivka_client_js_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView_2.11.2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3730ensemblPingRetries does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3739_useFormFieldText does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_prototype_comms_for_jbrowse2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser_updated_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3874_add_source_jars_to_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3982_mouseover_highlighting_viaJAL-3860 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4227_Rfam2020_sslines does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4392_consensus_secondary_structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-819undeleteAutoannotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/r2_11_2/JAL-3808_gff2_exonerate does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499_MEGA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1601_jpred4rest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4172_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4173_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON-File-format does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1807java2Script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1953_Archeopteryx_with_Jalview_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1965_JAL-753_JAL-1427_relaxedIdMatch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1978_msagrid does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2040_JAL-2137_phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2055alternateFeatureColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2094_colourInterface does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2103 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration_updated does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2253ensemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2351jmolExchange does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2476dropFiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-250_hideredundantseqs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport2_11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3010ontologyFeatureSettings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3020attributeValuePrompting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3085_gnupdf does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3417_sdppred_calcs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-345_selectFromFind does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3638_jumptonextindel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3641_phredfromfastq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4071_visibleFeaturesCounter does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4159_adjustable_gapparams_in_nw does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4220_showSymbolsBelowConsensusThresholdAsGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-629_with_threads_NOT_PASSING_TESTS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-666_exportoverview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-722alignmentProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-728alternateQuality does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845linkedProteinDnaEditing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845splitPaneMergeDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer_statistics does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer_merge_JAL-1950 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2/JAL-3922_jmolSelectionHighlighting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3829_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3929_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r_2_11_2_JAL-819_undeleteAutoAnnotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/flakytests/JAL-4026_AlignViewportWaitforcalculations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/hack/JAL-1617_workaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3289_new_launch_screens does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3384_Redirect_stdout_and_stdin_to_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_Improved_DMG_background_image_beta_strand does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_make_DMG_background_image_relative_path_in_DS_Store does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_FlatLaf_3.2.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_GTK_look_and_feel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3438_eclipse_java_code_formatting_as_a_gradle_task does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_BG_and_UoD_logos_added does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_added_subtle_grey_tesselating_logos_to_getdown_splashscreen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3728_icons_for_independent_jframes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3790_enable_copy_to_clipboard_of_getdown_splashscreen_text does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3826_gradle_configuration_for_intellij_idea does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_add_dependencies_reported_by_gradle_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_some_attempts_to_set_gradle_and_groovy_versions does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8_updated_jslib does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4054_Upgrade_to_install4j10 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4064_M1_native_JRE_bundled_in_DMG does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4245-return-null-from-getRootDataset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-toc does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jalview-headless does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jims/work_on_2_12/JAL-3664_hmmer_ux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/CipresWebservices does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer_tabbedsupport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/forester does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Ben_trying_out_JSdevelop_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3187_JAL-3010 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3210_developToJSDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3285_mchmmer_with_211_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-845_JAL-1640 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Jalview-JS/develop_feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merged_2_11_2_0_to_2_12 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmm/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4139-multi-harmony-patch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-task-execution-update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/Release_2_12_ws_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-1236_customClustalHeader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2694_maptoallchainsworkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2755_UniprotEnsemblSubnameWorkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2914_relaxedGFFpragmas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2996_JAL-3053_tildeBracketsPipesEtcAsGapChars does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3562_fixAlignmentPanelTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3584_cherrypickto-JAL-3676_2.11.1.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3626_gradle_refinementsfrom2111 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3794_X_is_a_dna_rna_base_too does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3821_ena_rna_moltype does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3847_gradleV7andV8Patches does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4079_scalability_bottlenecks does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4155_IdCanvas_getAlignPanel_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4195_calcWorker_for_2_11_2_6 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4216_negative_startend does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4222_quit_with_gui_export_cli_args does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4232-disable-unavailable-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/r2_11_2_6/JAL-2350_embl_xrefs_from_uniprot_version_consistency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_11_2_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_9_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/reviews/features/JAL-2136_phyre2_integration_withJims does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-1950_hmmer3client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-2778_changelookandfeelOpaqueWindows does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3548_exampleRestServer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3622_Scanner_swingjs_J212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3690_with_patched_j2s_v3_2_9_plugin does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3753_helphtmldupes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3781_2d_scaling does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4047/JAL-4048_columns_in_sequenceID does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4055_retire_JDesktop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/clinvar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/javier_noseqhack does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims/Release_2_12_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims_dec_2022_212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/t_sne_paeMatrix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/JAL-4113_javafx_with_Jalview_MSA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/kira does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/koen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/phyre does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/thomas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/toch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3042_remove_SimpleDocument_dependency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3089annLabelsPopup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3130_Java_11_investigations-Ben-2-CHANGES_TO_DEPRECATED_CALLS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3193mergeEnsemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3210_ben_testing_jalviewJS_building does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3252_adapt_getdown_to_unpack_tgz_resource_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3281_Automatic_installers_download_table_generation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3349_Support_cli_JRE_arguments_through_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3594_getdown_launcher_style does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3789_configurable_j2s_file_for_headless_transpile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3805_Remove_Old_Jalview_Uninstaller_application does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3911_getdown_improvements does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_GA4_cherry_picked does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_Plausible does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_firebase_test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/r2_11_2/JAL-3871_Jmol_dedup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3067_slivkaprep does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3070_wsinterfaces does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-2422_testing_on_linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-3416_setOpaque_true_test_with_JalviewInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testing/JAL-3577_jalviewversion_autoset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testpaches/JAL-2719_JAL-1264_testfails does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng_2022-01-28 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3949_update_code_to_use_log4j-2_directly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-4108_212_testng_jar_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/vamsasDemo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Archived_Release_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_10_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_11_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_4_0 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_5_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_6_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/2_5_1_rna_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1260_droldan does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1375_ncbiclient does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1562_help-documentation-system-refactoring does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1601-direct-jpred4-rest-service does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-2739_2.10.2b1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-113cc13-2019.08.28-js-optimizations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-SwingJS-omnibus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253_applet_omnibus-BH does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3315_getdown_1_8_6_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3368_JavaScript_colors does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3437_load_project does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3866_RNAalifold-slivka-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_web_services_overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_web_services_overhaul_no_clover does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3927_ws_preferences_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-4152-typed-singleton-provider does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-4154-platform-specific-constants does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-429_phylip-file-support does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JalScape/JAL-1332 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/20190123 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3445_support_for_BSML does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3453-TestNG-Desktop-getInstanceOnly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3560-bh-temp does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3560_bob_temp does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3563-sync-TestNG-test-bob does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/demo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop-JAL-3559 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop-updated-gradle does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3445-BSML-reader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.SequenceFeatureAsync does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.ctrlDown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop_j2s_v3_2_9_j11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle-minimal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle_with_goomph does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle_with_inline_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/jim/JAL-3253-JAL-3418 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/update_java2script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-jJS/JAL-3253-applet-JAL-3436 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Pre_R29_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/RNAalifold does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_3_BuildFix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_4_branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_5_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_6_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_7_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_1_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_2_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_9_0b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_9_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Tcoffee_JAL-1065 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/VamJalview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3066_Jalview_212_slivka-integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3362_Jalview_212_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3899_deuniquify_refactor does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/Jalview_212_test_merged_buildgradle does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/merge_212_JalviewJS_2112 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/arnaud/JAL-3929_spike does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1644_Finder-logic-improvement does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1712annotationsWithFlanking does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1988_quit_window_focus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2023_cdsProjectError does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2339helpBullets does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2541_JAL-2823_cutAndRelocateFeatures_needs_merge_from_211_release does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2791selectVisibleFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2848resetColoursAmendFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2876byLabelThreshold does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2907stockholmGapChar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3003epsWithSelection does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3059groupBorder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3083cancelAnnotationColour does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3178nonposFeatureExport_take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3183groupColourOverwritten does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3184restoreGroupVisibility does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3195idResolution does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3201groupClustal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3202zerosInProfile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3212columnSelectionWithHidden does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3215hydroColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3288_override_all_JInternalFrame_with_Classic_JInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3365_failing_per_sequence_ss_tests does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3473_SpinnerNumberModel_causing_IllegalArgumentException does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3487-splash-JS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3489mapChainsFromFile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3490findSpanHiddenGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3502wrappedScale does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-360+JAL-3975_keyboard_input_lost_after_dialog does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3609_HiDPI_in_Linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-360_JAL-3984_F2_stops_working_after_some_dialogs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3613emblCDSTracking does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3633_Allow_HTTPS_proxy_configuration_for_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3648graphDragRelease does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3702_Drag_and_drop_miscalculation_in_linux_HiDPI does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3705saveProteinId does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3706virtualStopCodon does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3725overlappingVirtualFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3744_read_gzip_file_in_jalviewjs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3751_revisited does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3751overlappingCDS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3761_locateInFromTo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3774_splitFrameFinder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3779setGroupProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3788_autoOverviewClustal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3807_jpred-with-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3809_ws_params_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3810_annotation_ws_stopping_abruptly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3849_aacon-parameters does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3972_VAqua_for_Java11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3975_keyboard_input_stops_working_after_create_sequence_feature does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4026_fix_failingSeqPanel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4041_no_3dbeacons_when_no_uniprotseq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4041_problems_with_3dbeacons_search does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4072_zip_slip_vulnerability_in_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4073_pfam_website_being_decommissioned does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4118_Fix_QuitHandlerTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4153_JvCacheableInputBoxTest_flaky_on_build_server does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4225_rnaalifold_structure_not_recognised_as_such does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4229_varna_helix_mapping_offby1 does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4313-make-visible-annot-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4369_uniprot_in_jalviewJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4374_missing_colon_when_using_jalview_scheme_with_host_and_port does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4389-web-services-prefs-panel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherry-pick/JAL-3621_to_Release_2_11_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherry-pick/JAL-3691_to_2.11.2_localeSafeFileImport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherrypicks/JAL-3660_JAL-3561_JAL-3662_cli_outputformat does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/codereviews/JAL-1990_IProgressIndicator_jalview.structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/JAL-3878_ws_overhaul_3_merged_with_2_12_Merged does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/Release_2_12_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/Release_2_12_Branch_JAL-4102_21126_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-1260_genbank_embl_flatfile_import_reloaded does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2087ensemblSpeciesAssist does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2422ChimeraX does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2611 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2674take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2738GeneLocus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2873ensemblSpeciesQuery does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles_features does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3081customAnnOrder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3117_overviewFocusAlignment does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3148structureColourSchemes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3187viewstyleFlags does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3190jalviewjsChimera does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3194_create_launcher_with_dynamic_memory_heap_setting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3251biotypedMappings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3364splitFrameImage does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3390hideUnmappedStructure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3400viewChainsMenu does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3442colourCaching does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3443findColorAsInt does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3469clinvarVCF does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3481_conservation_gap_threshold_preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3499featuresFileMotifs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3515-slivka-preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3686_slivka_client_js_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView_2.11.2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3730ensemblPingRetries does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3739_useFormFieldText does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_prototype_comms_for_jbrowse2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser_updated_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3874_add_source_jars_to_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3982_mouseover_highlighting_viaJAL-3860 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4227_Rfam2020_sslines does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4392_consensus_secondary_structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-819undeleteAutoannotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/r2_11_2/JAL-3808_gff2_exonerate does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499_MEGA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1601_jpred4rest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4172_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4173_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON-File-format does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1807java2Script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1953_Archeopteryx_with_Jalview_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1965_JAL-753_JAL-1427_relaxedIdMatch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1978_msagrid does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2040_JAL-2137_phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2055alternateFeatureColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2094_colourInterface does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2103 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration_updated does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2253ensemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2351jmolExchange does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2476dropFiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-250_hideredundantseqs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport2_11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3010ontologyFeatureSettings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3020attributeValuePrompting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3085_gnupdf does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3417_sdppred_calcs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-345_selectFromFind does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3638_jumptonextindel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3641_phredfromfastq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4071_visibleFeaturesCounter does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4159_adjustable_gapparams_in_nw does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4220_showSymbolsBelowConsensusThresholdAsGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-629_with_threads_NOT_PASSING_TESTS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-666_exportoverview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-722alignmentProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-728alternateQuality does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845linkedProteinDnaEditing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845splitPaneMergeDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer_statistics does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer_merge_JAL-1950 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2/JAL-3922_jmolSelectionHighlighting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3829_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3929_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r_2_11_2_JAL-819_undeleteAutoAnnotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/flakytests/JAL-4026_AlignViewportWaitforcalculations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/hack/JAL-1617_workaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3289_new_launch_screens does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3384_Redirect_stdout_and_stdin_to_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_Improved_DMG_background_image_beta_strand does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_make_DMG_background_image_relative_path_in_DS_Store does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_FlatLaf_3.2.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_GTK_look_and_feel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3438_eclipse_java_code_formatting_as_a_gradle_task does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_BG_and_UoD_logos_added does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_added_subtle_grey_tesselating_logos_to_getdown_splashscreen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3728_icons_for_independent_jframes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3790_enable_copy_to_clipboard_of_getdown_splashscreen_text does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3826_gradle_configuration_for_intellij_idea does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_add_dependencies_reported_by_gradle_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_some_attempts_to_set_gradle_and_groovy_versions does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8_updated_jslib does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4054_Upgrade_to_install4j10 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4064_M1_native_JRE_bundled_in_DMG does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4245-return-null-from-getRootDataset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-toc does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jalview-headless does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jims/work_on_2_12/JAL-3664_hmmer_ux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/CipresWebservices does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer_tabbedsupport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/forester does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Ben_trying_out_JSdevelop_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3187_JAL-3010 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3210_developToJSDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3285_mchmmer_with_211_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-845_JAL-1640 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Jalview-JS/develop_feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merged_2_11_2_0_to_2_12 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmm/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4139-multi-harmony-patch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-task-execution-update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/Release_2_12_ws_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-1236_customClustalHeader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2694_maptoallchainsworkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2755_UniprotEnsemblSubnameWorkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2914_relaxedGFFpragmas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2996_JAL-3053_tildeBracketsPipesEtcAsGapChars does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3562_fixAlignmentPanelTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3584_cherrypickto-JAL-3676_2.11.1.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3626_gradle_refinementsfrom2111 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3794_X_is_a_dna_rna_base_too does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3821_ena_rna_moltype does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3847_gradleV7andV8Patches does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4079_scalability_bottlenecks does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4155_IdCanvas_getAlignPanel_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4195_calcWorker_for_2_11_2_6 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4216_negative_startend does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4222_quit_with_gui_export_cli_args does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4232-disable-unavailable-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/r2_11_2_6/JAL-2350_embl_xrefs_from_uniprot_version_consistency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_11_2_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_9_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/reviews/features/JAL-2136_phyre2_integration_withJims does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-1950_hmmer3client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-2778_changelookandfeelOpaqueWindows does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3548_exampleRestServer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3622_Scanner_swingjs_J212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3690_with_patched_j2s_v3_2_9_plugin does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3753_helphtmldupes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3781_2d_scaling does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4047/JAL-4048_columns_in_sequenceID does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4055_retire_JDesktop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/clinvar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/javier_noseqhack does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims/Release_2_12_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims_dec_2022_212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/t_sne_paeMatrix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/JAL-4113_javafx_with_Jalview_MSA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/kira does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/koen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/phyre does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/thomas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/toch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3042_remove_SimpleDocument_dependency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3089annLabelsPopup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3130_Java_11_investigations-Ben-2-CHANGES_TO_DEPRECATED_CALLS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3193mergeEnsemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3210_ben_testing_jalviewJS_building does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3252_adapt_getdown_to_unpack_tgz_resource_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3281_Automatic_installers_download_table_generation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3349_Support_cli_JRE_arguments_through_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3594_getdown_launcher_style does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3789_configurable_j2s_file_for_headless_transpile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3805_Remove_Old_Jalview_Uninstaller_application does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3911_getdown_improvements does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_GA4_cherry_picked does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_Plausible does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_firebase_test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/r2_11_2/JAL-3871_Jmol_dedup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3067_slivkaprep does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3070_wsinterfaces does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-2422_testing_on_linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-3416_setOpaque_true_test_with_JalviewInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testing/JAL-3577_jalviewversion_autoset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testpaches/JAL-2719_JAL-1264_testfails does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng_2022-01-28 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3949_update_code_to_use_log4j-2_directly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-4108_212_testng_jar_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/vamsasDemo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Archived_Release_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_10_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_11_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_4_0 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_5_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_6_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 From file:///srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache/2597b807d50ab756c763be1d374b09c84289a164 simple 15-Nov-2024 00:08:37 416aad3..544bd63 develop -> origin/develop simple 15-Nov-2024 00:08:37 * [new branch] patch/JAL-4077_jmolsaveloadwindows -> origin/patch/JAL-4077_jmolsaveloadwindows simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/2_5_1_rna_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1260_droldan does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1375_ncbiclient does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1562_help-documentation-system-refactoring does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-1601-direct-jpred4-rest-service does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-2739_2.10.2b1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-113cc13-2019.08.28-js-optimizations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-SwingJS-omnibus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253-applet-test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3253_applet_omnibus-BH does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3315_getdown_1_8_6_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3368_JavaScript_colors does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3437_load_project does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3866_RNAalifold-slivka-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_web_services_overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_web_services_overhaul_no_clover does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3927_ws_preferences_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-4152-typed-singleton-provider does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-4154-platform-specific-constants does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JAL-429_phylip-file-support does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/JalScape/JAL-1332 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/20190123 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3445_support_for_BSML does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-JAL-3453-TestNG-Desktop-getInstanceOnly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3253-applet-SwingJS-3.2.9.v1e does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3560-bh-temp does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3560_bob_temp does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/JAL-3563-sync-TestNG-test-bob does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/demo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop-JAL-3559 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop-updated-gradle does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3445-BSML-reader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.SequenceFeatureAsync does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop.JAL-3446.ctrlDown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/develop_j2s_v3_2_9_j11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle-minimal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle_with_goomph does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/gradle_with_inline_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/jim/JAL-3253-JAL-3418 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-JS/update_java2script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Jalview-jJS/JAL-3253-applet-JAL-3436 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Pre_R29_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/RNAalifold does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_3_BuildFix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_4_branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_5_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_6_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_7_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_1_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_2_Branch_i18n does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_8_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_9_0b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Release_2_9_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/Tcoffee_JAL-1065 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/VamJalview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3066_Jalview_212_slivka-integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3362_Jalview_212_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/JAL-3899_deuniquify_refactor does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/Jalview_212_test_merged_buildgradle does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/alpha/merge_212_JalviewJS_2112 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/arnaud/JAL-3929_spike does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1644_Finder-logic-improvement does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1712annotationsWithFlanking does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-1988_quit_window_focus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2023_cdsProjectError does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2339helpBullets does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2541_JAL-2823_cutAndRelocateFeatures_needs_merge_from_211_release does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2791selectVisibleFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2848resetColoursAmendFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2876byLabelThreshold does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-2907stockholmGapChar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3003epsWithSelection does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3059groupBorder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3083cancelAnnotationColour does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3178nonposFeatureExport_take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3183groupColourOverwritten does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3184restoreGroupVisibility does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3195idResolution does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3201groupClustal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3202zerosInProfile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3212columnSelectionWithHidden does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3215hydroColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3235sortPropertiesJava9-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3288_override_all_JInternalFrame_with_Classic_JInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3365_failing_per_sequence_ss_tests does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3473_SpinnerNumberModel_causing_IllegalArgumentException does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3487-splash-JS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3489mapChainsFromFile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3490findSpanHiddenGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3502wrappedScale does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-360+JAL-3975_keyboard_input_lost_after_dialog does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3609_HiDPI_in_Linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-360_JAL-3984_F2_stops_working_after_some_dialogs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3613emblCDSTracking does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3633_Allow_HTTPS_proxy_configuration_for_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3648graphDragRelease does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3702_Drag_and_drop_miscalculation_in_linux_HiDPI does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3705saveProteinId does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3706virtualStopCodon does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3725overlappingVirtualFeatures does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3744_read_gzip_file_in_jalviewjs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3751_revisited does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3751overlappingCDS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3761_locateInFromTo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3774_splitFrameFinder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3779setGroupProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3788_autoOverviewClustal does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3807_jpred-with-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3809_ws_params_dialog_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3810_annotation_ws_stopping_abruptly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3849_aacon-parameters does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3972_VAqua_for_Java11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-3975_keyboard_input_stops_working_after_create_sequence_feature does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4026_fix_failingSeqPanel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4041_no_3dbeacons_when_no_uniprotseq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4041_problems_with_3dbeacons_search does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4072_zip_slip_vulnerability_in_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4073_pfam_website_being_decommissioned does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4118_Fix_QuitHandlerTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4153_JvCacheableInputBoxTest_flaky_on_build_server does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4225_rnaalifold_structure_not_recognised_as_such does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4229_varna_helix_mapping_offby1 does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4313-make-visible-annot-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4353_cannot_output_multiple_different_structure_images_for_one_alignment does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4369_uniprot_in_jalviewJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4374_missing_colon_when_using_jalview_scheme_with_host_and_port does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/bug/JAL-4389-web-services-prefs-panel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherry-pick/JAL-3621_to_Release_2_11_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherry-pick/JAL-3691_to_2.11.2_localeSafeFileImport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/cherrypicks/JAL-3660_JAL-3561_JAL-3662_cli_outputformat does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/codereviews/JAL-1990_IProgressIndicator_jalview.structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/JAL-3878_ws_overhaul_3_merged_with_2_12_Merged does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/Release_2_12_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/development/Release_2_12_Branch_JAL-4102_21126_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-1260_genbank_embl_flatfile_import_reloaded does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2087ensemblSpeciesAssist does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2422ChimeraX does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2611 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2674take2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2738GeneLocus does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2873ensemblSpeciesQuery does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-2909bamfiles_features does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3081customAnnOrder does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3117_overviewFocusAlignment does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3148structureColourSchemes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3187viewstyleFlags does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3190jalviewjsChimera does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3194_create_launcher_with_dynamic_memory_heap_setting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3251biotypedMappings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3364splitFrameImage does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3390hideUnmappedStructure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3400viewChainsMenu does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3442colourCaching does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3443findColorAsInt does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3469clinvarVCF does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3481_conservation_gap_threshold_preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3499featuresFileMotifs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3515-slivka-preferences does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3686_slivka_client_js_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3719_gapColourInAlignmentView_2.11.2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3730ensemblPingRetries does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3739_useFormFieldText does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_prototype_comms_for_jbrowse2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3851_rest_api_for_genome_browser_updated_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3874_add_source_jars_to_eclipse does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-3982_mouseover_highlighting_viaJAL-3860 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4227_Rfam2020_sslines does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-4392_consensus_secondary_structure does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/JAL-819undeleteAutoannotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/feature/r2_11_2/JAL-3808_gff2_exonerate does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1499_MEGA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1550_intermine-sequence-annotation-client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1601_jpred4rest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4172_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-161_JAL-4173_nhx_tags_in_stockholm does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1641_JSON-File-format does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1807java2Script does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1953_Archeopteryx_with_Jalview_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1965_JAL-753_JAL-1427_relaxedIdMatch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-1978_msagrid does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2040_JAL-2137_phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2055alternateFeatureColours does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2094_colourInterface does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2103 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2136_phyre2_integration_updated does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2253ensemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2351jmolExchange does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2476dropFiles does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-250_hideredundantseqs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport2_11 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-2909_bamImport_2_11_2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3010ontologyFeatureSettings does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3020attributeValuePrompting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3085_gnupdf does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3417_sdppred_calcs does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-345_selectFromFind does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3638_jumptonextindel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-3641_phredfromfastq does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4071_visibleFeaturesCounter does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4159_adjustable_gapparams_in_nw does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-4220_showSymbolsBelowConsensusThresholdAsGaps does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-629_with_threads_NOT_PASSING_TESTS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-666_exportoverview does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-722alignmentProperties does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-728alternateQuality does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845linkedProteinDnaEditing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/JAL-845splitPaneMergeDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/hmmer_statistics does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/mchmmer_merge_JAL-1950 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2/JAL-3922_jmolSelectionHighlighting does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3829_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r2_11_2_JAL-3929_3dbeacons does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/features/r_2_11_2_JAL-819_undeleteAutoAnnotation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/flakytests/JAL-4026_AlignViewportWaitforcalculations does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/hack/JAL-1617_workaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3289_new_launch_screens does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3384_Redirect_stdout_and_stdin_to_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_Improved_DMG_background_image_beta_strand does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3393_make_DMG_background_image_relative_path_in_DS_Store does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_FlatLaf_3.2.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3416_GTK_look_and_feel does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3438_eclipse_java_code_formatting_as_a_gradle_task does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_BG_and_UoD_logos_added does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3594_added_subtle_grey_tesselating_logos_to_getdown_splashscreen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3728_icons_for_independent_jframes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3790_enable_copy_to_clipboard_of_getdown_splashscreen_text does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3826_gradle_configuration_for_intellij_idea does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_add_dependencies_reported_by_gradle_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3847_some_attempts_to_set_gradle_and_groovy_versions does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-3848_slivka_0.8_updated_jslib does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4054_Upgrade_to_install4j10 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4064_M1_native_JRE_bundled_in_DMG does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/improvement/JAL-4245-return-null-from-getRootDataset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-bh-2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/j2s/develop-toc does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jalview-headless does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/jims/work_on_2_12/JAL-3664_hmmer_ux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/CipresWebservices does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/PhylogenyViewer_tabbedsupport does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/forester does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/kjvdh/features/testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Ben_trying_out_JSdevelop_with_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-2136_phyre2_integration does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3187_JAL-3010 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3210_developToJSDevelop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-3285_mchmmer_with_211_develop does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/JAL-845_JAL-1640 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merge/Jalview-JS/develop_feature/JAL-3690_callback-based-web-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/merged_2_11_2_0_to_2_12 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmm/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878-ws-overhaul does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3878_ws-overhaul-3 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954-ebi-phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-3954_ebi_phmmer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4139-multi-harmony-patch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-task-execution-update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/JAL-4199-web-services-testing does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/Release_2_12_ws_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/mmw/bug/JAL-4241-annotation-alignment-fix-slivka does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-1236_customClustalHeader does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2694_maptoallchainsworkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2755_UniprotEnsemblSubnameWorkaround does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2914_relaxedGFFpragmas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-2996_JAL-3053_tildeBracketsPipesEtcAsGapChars does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3562_fixAlignmentPanelTest does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3584_cherrypickto-JAL-3676_2.11.1.1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3626_gradle_refinementsfrom2111 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3794_X_is_a_dna_rna_base_too does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3821_ena_rna_moltype does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-3847_gradleV7andV8Patches does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4079_scalability_bottlenecks does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4155_IdCanvas_getAlignPanel_fix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4195_calcWorker_for_2_11_2_6 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4216_negative_startend does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4222_quit_with_gui_export_cli_args does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/JAL-4232-disable-unavailable-services does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/patch/r2_11_2_6/JAL-2350_embl_xrefs_from_uniprot_version_consistency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_2b1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_10_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_11_2_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/releases/Release_2_9_1_Branch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/reviews/features/JAL-2136_phyre2_integration_withJims does not point to a valid object! simple 15-Nov-2024 00:08:37 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! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-1950_hmmer3client does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-2778_changelookandfeelOpaqueWindows does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3548_exampleRestServer does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3622_Scanner_swingjs_J212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3690_with_patched_j2s_v3_2_9_plugin does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3753_helphtmldupes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-3781_2d_scaling does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4047/JAL-4048_columns_in_sequenceID does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/JAL-4055_retire_JDesktop does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/clinvar does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/javier_noseqhack does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims/Release_2_12_alpha does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/jims_dec_2022_212_merge does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/phyre2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spike/t_sne_paeMatrix does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/JAL-4113_javafx_with_Jalview_MSA does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/jim does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/kira does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/koen does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/mungo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/phyre does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/thomas does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/spikes/toch does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/story/JAL-3588_Examples_folder_in_macOS_DMG_Finder_window does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3042_remove_SimpleDocument_dependency does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3089annLabelsPopup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3130_Java_11_investigations-Ben-2-CHANGES_TO_DEPRECATED_CALLS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3193mergeEnsemblGenomes does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3210_ben_testing_jalviewJS_building does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3252_adapt_getdown_to_unpack_tgz_resource_files does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3281_Automatic_installers_download_table_generation does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3349_Support_cli_JRE_arguments_through_getdown does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3594_getdown_launcher_style does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3789_configurable_j2s_file_for_headless_transpile does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3805_Remove_Old_Jalview_Uninstaller_application does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-3911_getdown_improvements does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_GA4_cherry_picked does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_Release_2_11_2_Branch_with_Plausible does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4001_firebase_test does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/JAL-4059_updateJmolandSwingJS does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/task/r2_11_2/JAL-3871_Jmol_dedup does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3067_slivkaprep does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/tasks/JAL-3070_wsinterfaces does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-2422_testing_on_linux does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/test/JAL-3416_setOpaque_true_test_with_JalviewInternalFrame does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testing/JAL-3577_jalviewversion_autoset does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/testpaches/JAL-2719_JAL-1264_testfails does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/trial_merge/develop/bug/JAL-247autoIdWidthSeqMarker does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3066_updated_testng_2022-01-28 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-3949_update_code_to_use_log4j-2_directly does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/update/JAL-4108_212_testng_jar_update does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/remotes/origin/vamsasDemo does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Archived_Release_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_10_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_11_2_7 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_4_0 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_5_1 does not point to a valid object! simple 15-Nov-2024 00:08:37 error: refs/tags/Release_2_6_1 does not point to a valid object! simple 15-Nov-2024 00:08:38 Already on 'develop' simple 15-Nov-2024 00:08:38 Your branch is behind 'origin/develop' by 13 commits, and can be fast-forwarded. simple 15-Nov-2024 00:08:38 (use "git pull" to update your local branch) simple 15-Nov-2024 00:08:39 HEAD is now at 544bd63 JAL-2275 JAL-3921 JAL-4077 release notes JAL-4090 simple 15-Nov-2024 00:08:39 Updated source code to revision: 544bd63f8e2c0122da4f309bdc415162fc1da737 simple 15-Nov-2024 00:08:39 Finished task 'Checkout Default Repository' with result: Success simple 15-Nov-2024 00:08:39 Running pre-build action: VCS Version Collector simple 15-Nov-2024 00:08:39 Running pre-build action: Artifactory Release Staging command 15-Nov-2024 00:08:39 Substituting variable: ${bamboo.CHANNEL} with TEST-RELEASE command 15-Nov-2024 00:08:39 Substituting variable: ${bamboo.planKey} with JB-GTC simple 15-Nov-2024 00:08:39 Starting task 'Jalview ${bamboo.CHANNEL} distribution for Java 11' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' simple 15-Nov-2024 00:08:39 Bamboo Artifactory Plugin version: 2.6.2 command 15-Nov-2024 00:08:39 Beginning to execute external process for build 'Jalview Builds - Getdown TEST_RELEASE Channel - Default Job #15 (JB-GTC-JOB1-15)'\n ... running command line: \n/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GTC clean getdown shadowJar\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=develop\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nCATALINA_PID=/home/bamboo/latest/work/bamboo.pid\nbamboo_planRepository_1_branchDisplayName=develop\nbamboo_repository_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nJAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GTC-JOB1\nbamboo_shortPlanName=Getdown TEST_RELEASE Channel\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497968_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nLOGNAME=bamboo\nbamboo_buildNumber=15\nPWD=/\nbamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nSHELL=/bin/bash\nbamboo_repository_46497968_git_username=\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown TEST_RELEASE Channel\nbamboo_shortPlanKey=GTC\nbamboo_repository_46497968_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildTimeStamp=2024-11-15T00:00:00.311Z\nbamboo_repository_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_repository_git_branch=develop\nbamboo_buildResultKey=JB-GTC-JOB1-15\nbamboo_repository_branch_name=develop\nbamboo_buildPlanName=Jalview Builds - Getdown TEST_RELEASE Channel - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nSHLVL=1\nbamboo_CHANNEL=TEST-RELEASE\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_repository_46497968_name=Jalview Git\nbamboo_repository_name=Jalview Git\nJAVA_HOME=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/\nLANG=en_GB.UTF-8\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=develop\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_branchDisplayName=develop\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=develop\n_=/usr/bin/java\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301535\nbamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle\nbamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=gitv2\nbamboo_repository_46497968_git_branch=develop\nbamboo_repository_46497968_branch_name=develop\nUSER=bamboo\nbamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_capability_system_builder_ant_Ant=/usr/share/ant\nbamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven\nbamboo_tmp_directory=/srv/bamboo/bamboo-home/temp\nbamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planKey=JB-GTC\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_repository_46497968_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nHOME=/home/bamboo\nbamboo_planRepository_1_branchName=develop\nPATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin\n build 15-Nov-2024 00:08:41 build 15-Nov-2024 00:08:41 > Configure project : build 15-Nov-2024 00:08:41 Using properties from file './utils/channels/test-release/channel_gradle.properties' build 15-Nov-2024 00:08:41 JALVIEW_VERSION is set to '2.11.4.2' build 15-Nov-2024 00:08:41 HEADLESS BUILD build 15-Nov-2024 00:08:41 J2S ENABLED build 15-Nov-2024 00:08:41 Setting jalviewjs_ignore_transpile_errors to 'false' build 15-Nov-2024 00:08:41 Using a TEST-RELEASE profile. build 15-Nov-2024 00:08:41 eclipseDir exists build 15-Nov-2024 00:08:41 build 15-Nov-2024 00:08:41 > Task :clean build 15-Nov-2024 00:08:41 > Task :cleanPackageDir UP-TO-DATE build 15-Nov-2024 00:08:41 > Task :getdownImagesCopy build 15-Nov-2024 00:08:41 > Task :getdownImagesProcess build 15-Nov-2024 00:08:41 > Task :getdownImages build 15-Nov-2024 00:08:43 > Task :copyHelp build 15-Nov-2024 00:08:48 > Task :buildIndices build 15-Nov-2024 00:08:48 > Task :copyResources build 15-Nov-2024 00:08:49 > Task :copyChannelResources build 15-Nov-2024 00:08:49 build 15-Nov-2024 00:08:49 > Task :createBuildProperties build 15-Nov-2024 00:08:49 Execution optimizations have been disabled for task ':createBuildProperties' to ensure correctness due to the following reasons: build 15-Nov-2024 00:08:49 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':createBuildProperties' uses this output of task ':copyChannelResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:08:49 build 15-Nov-2024 00:08:49 > Task :buildResources build 15-Nov-2024 00:08:49 > Task :copyDocs build 15-Nov-2024 00:08:49 build 15-Nov-2024 00:08:49 > Task :convertMdFiles build 15-Nov-2024 00:08:49 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/README-DMG_creation.html build 15-Nov-2024 00:08:49 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/releaseprocess.html build 15-Nov-2024 00:08:49 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/README-DMG_background_image_creation.html build 15-Nov-2024 00:08:49 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/building.html build 15-Nov-2024 00:08:49 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/jalview-projects.html build 15-Nov-2024 00:08:49 build 15-Nov-2024 00:08:49 > Task :releasesTemplates build 15-Nov-2024 00:08:49 Execution optimizations have been disabled for task ':releasesTemplates' to ensure correctness due to the following reasons: build 15-Nov-2024 00:08:49 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build/help/html/releases.html'. Reason: Task ':buildIndices' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:08:49 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build/help/html/whatsNew.html'. Reason: Task ':buildIndices' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:08:49 Stripping rc/test/etc for 2_11_4_2-test build 15-Nov-2024 00:08:49 Looking in /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/help/markdown/whatsnew/whatsnew-2_11_4_2.md build 15-Nov-2024 00:08:49 build 15-Nov-2024 00:08:49 > Task :prepare build 15-Nov-2024 00:08:51 build 15-Nov-2024 00:08:51 > Task :compileJava build 15-Nov-2024 00:08:51 Setting target compatibility to 11 error 15-Nov-2024 00:09:06 Note: Some input files use or override a deprecated API. error 15-Nov-2024 00:09:06 Note: Recompile with -Xlint:deprecation for details. error 15-Nov-2024 00:09:06 Note: Some input files use unchecked or unsafe operations. error 15-Nov-2024 00:09:06 Note: Recompile with -Xlint:unchecked for details. build 15-Nov-2024 00:09:06 build 15-Nov-2024 00:09:06 > Task :processResources build 15-Nov-2024 00:09:06 Execution optimizations have been disabled for task ':processResources' to ensure correctness due to the following reasons: build 15-Nov-2024 00:09:06 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build'. Reason: Task ':processResources' uses this output of task ':convertMdFiles' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:06 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build'. Reason: Task ':processResources' uses this output of task ':copyDocs' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:06 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':buildIndices' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:06 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':copyHelp' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:06 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:06 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':copyChannelResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:06 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':copyResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:06 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':createBuildProperties' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:06 build 15-Nov-2024 00:09:06 > Task :classes build 15-Nov-2024 00:09:08 build 15-Nov-2024 00:09:08 > Task :compileLinkCheck build 15-Nov-2024 00:09:08 Execution optimizations have been disabled for task ':compileLinkCheck' to ensure correctness due to the following reasons: build 15-Nov-2024 00:09:08 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/utils'. Reason: Task ':convertMdFiles' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:08 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/utils'. Reason: Task ':copyChannelResources' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:08 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/utils'. Reason: Task ':getdownImagesCopy' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:09:10 build 15-Nov-2024 00:09:10 > Task :linkCheck build 15-Nov-2024 00:09:10 Checking help file links build 15-Nov-2024 00:11:15 build 15-Nov-2024 00:11:15 Results: build 15-Nov-2024 00:11:15 159 distinct help targets build 15-Nov-2024 00:11:15 159 help mappings build 15-Nov-2024 00:11:15 0 invalid targets build 15-Nov-2024 00:11:15 32 unused targets build 15-Nov-2024 00:11:15 uniprotfetcher: html/features/uniprotsequencefetcher.html build 15-Nov-2024 00:11:15 overviewprefs: html/features/preferences.html#overview build 15-Nov-2024 00:11:15 cdnafeatures: html/features/codingfeatures.html build 15-Nov-2024 00:11:15 startupprefs: html/features/preferences.html#startup build 15-Nov-2024 00:11:15 ensemblfetch: html/features/ensemblsequencefetcher.html build 15-Nov-2024 00:11:15 io.modellerpir: html/io/modellerpir.html build 15-Nov-2024 00:11:15 structureandpaefromfile: html/features/structurechooser.html#loadfromfile build 15-Nov-2024 00:11:15 pdbmcviewer: html/features/pdbviewer.html build 15-Nov-2024 00:11:15 workingwithpae: html/features/paematrices.html build 15-Nov-2024 00:11:15 groovy.colours: html/features/groovy.html#groovyColours build 15-Nov-2024 00:11:15 seqmappings: html/features/seqmappings.html build 15-Nov-2024 00:11:15 uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts build 15-Nov-2024 00:11:15 splitframe.mirrorfonts: html/features/splitView.html#mirror build 15-Nov-2024 00:11:15 subtMatrices.pam250: html/calculations/scorematrices.html#pam250 build 15-Nov-2024 00:11:15 search: html/features/search.html build 15-Nov-2024 00:11:15 viewingpdbs.reps: html/features/viewingpdbs.html#viewreps build 15-Nov-2024 00:11:15 alformats: html/io/fileformats.html build 15-Nov-2024 00:11:15 strucprefs: html/features/preferences.html#structure build 15-Nov-2024 00:11:15 siftsmapping: html/features/siftsmapping.html build 15-Nov-2024 00:11:15 chimera.annotxfer: html/features/chimera.html#annotxfer build 15-Nov-2024 00:11:15 pdbfts: html/features/pdbsequencefetcher.html#pdbfts build 15-Nov-2024 00:11:15 newkeys: html/features/newkeystrokes.html build 15-Nov-2024 00:11:15 importvcf.attribs: html/features/importvcf.html#attribs build 15-Nov-2024 00:11:15 seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature build 15-Nov-2024 00:11:15 structuresvia3dbeacons: html/features/structurechooser.html#3dbeaconssearch build 15-Nov-2024 00:11:15 jalarchive: html/features/jalarchive.html build 15-Nov-2024 00:11:15 newsreader: html/webServices/newsreader.html build 15-Nov-2024 00:11:15 jalviewcltool: html/features/commandline.html#script build 15-Nov-2024 00:11:15 popMenuAddref: html/menus/popupMenu.html#addrefannot build 15-Nov-2024 00:11:15 splitframe.virtualfeats: html/features/splitView.html#virtualfeats build 15-Nov-2024 00:11:15 paematrixformat: html/io/paematrixformat.html build 15-Nov-2024 00:11:15 overview: html/features/overview.html build 15-Nov-2024 00:11:15 0 invalid map urls build 15-Nov-2024 00:11:15 0 invalid image attributes build 15-Nov-2024 00:11:15 506 internal href links (110 with anchors) build 15-Nov-2024 00:11:15 0 invalid internal href links build 15-Nov-2024 00:11:15 0 invalid internal anchor links build 15-Nov-2024 00:11:15 112 external href links build 15-Nov-2024 00:11:15 External links not verified as internet not available build 15-Nov-2024 00:11:15 *** Success *** build 15-Nov-2024 00:11:16 build 15-Nov-2024 00:11:16 > Task :jar build 15-Nov-2024 00:11:18 > Task :syncJars build 15-Nov-2024 00:11:18 > Task :makeDist build 15-Nov-2024 00:11:19 > Task :getdownWebsiteBuild build 15-Nov-2024 00:11:21 build 15-Nov-2024 00:11:21 > Task :getdownDigest build 15-Nov-2024 00:11:21 Generating digest file './build/website/docroot/getdown/test-release/11/digest.txt'... build 15-Nov-2024 00:11:21 Generating digest file './build/website/docroot/getdown/test-release/11/digest2.txt'... build 15-Nov-2024 00:11:21 build 15-Nov-2024 00:11:21 > Task :getdown build 15-Nov-2024 00:11:21 LIKELY RSYNC COMMAND: build 15-Nov-2024 00:11:21 mkdir -p '/Volumes/jalview/docroot/getdown/test-release/11/' build 15-Nov-2024 00:11:21 rsync -avh --delete './build/website/docroot/getdown/test-release/11/' '/Volumes/jalview/docroot/getdown/test-release/11/' error 15-Nov-2024 00:11:21 2024/11/15 00:11:19:813 WARNING Starting without install4j classes error 15-Nov-2024 00:11:21 2024/11/15 00:11:20:336 WARNING Starting without install4j classes build 15-Nov-2024 00:11:28 build 15-Nov-2024 00:11:28 > Task :shadowJar build 15-Nov-2024 00:11:28 build 15-Nov-2024 00:11:28 Deprecated Gradle features were used in this build, making it incompatible with Gradle 8.0. build 15-Nov-2024 00:11:28 build 15-Nov-2024 00:11:28 You can use '--warning-mode all' to show the individual deprecation warnings and determine if they come from your own scripts or plugins. build 15-Nov-2024 00:11:28 build 15-Nov-2024 00:11:28 See https://docs.gradle.org/7.4.2/userguide/command_line_interface.html#sec:command_line_warnings build 15-Nov-2024 00:11:28 build 15-Nov-2024 00:11:28 Execution optimizations have been disabled for 4 invalid unit(s) of work during this build to ensure correctness. build 15-Nov-2024 00:11:28 Please consult deprecation warnings for more details. build 15-Nov-2024 00:11:28 build 15-Nov-2024 00:11:28 BUILD SUCCESSFUL in 2m 49s build 15-Nov-2024 00:11:28 22 actionable tasks: 21 executed, 1 up-to-date simple 15-Nov-2024 00:11:28 Finished task 'Jalview ${bamboo.CHANNEL} distribution for Java 11' with result: Success command 15-Nov-2024 00:11:28 Substituting variable: ${bamboo.CHANNEL} with TEST-RELEASE command 15-Nov-2024 00:11:28 Substituting variable: ${bamboo.planKey} with JB-GTC simple 15-Nov-2024 00:11:28 Starting task 'Jalview 1.8 build' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' simple 15-Nov-2024 00:11:28 Bamboo Artifactory Plugin version: 2.6.2 command 15-Nov-2024 00:11:28 Beginning to execute external process for build 'Jalview Builds - Getdown TEST_RELEASE Channel - Default Job #15 (JB-GTC-JOB1-15)'\n ... running command line: \n/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=1.8 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC getdown shadowJar\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=develop\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nCATALINA_PID=/home/bamboo/latest/work/bamboo.pid\nbamboo_planRepository_1_branchDisplayName=develop\nbamboo_repository_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nJAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GTC-JOB1\nbamboo_shortPlanName=Getdown TEST_RELEASE Channel\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497968_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nLOGNAME=bamboo\nbamboo_buildNumber=15\nPWD=/\nbamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nSHELL=/bin/bash\nbamboo_repository_46497968_git_username=\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown TEST_RELEASE Channel\nbamboo_shortPlanKey=GTC\nbamboo_repository_46497968_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildTimeStamp=2024-11-15T00:00:00.311Z\nbamboo_repository_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_repository_git_branch=develop\nbamboo_buildResultKey=JB-GTC-JOB1-15\nbamboo_repository_branch_name=develop\nbamboo_buildPlanName=Jalview Builds - Getdown TEST_RELEASE Channel - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nSHLVL=1\nbamboo_CHANNEL=TEST-RELEASE\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_repository_46497968_name=Jalview Git\nbamboo_repository_name=Jalview Git\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_2=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GTC clean getdown shadowJar\nJAVA_HOME=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/\nLANG=en_GB.UTF-8\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=develop\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_branchDisplayName=develop\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=develop\n_=/usr/bin/java\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301535\nbamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle\nbamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=gitv2\nbamboo_repository_46497968_git_branch=develop\nbamboo_repository_46497968_branch_name=develop\nUSER=bamboo\nbamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_capability_system_builder_ant_Ant=/usr/share/ant\nbamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven\nbamboo_tmp_directory=/srv/bamboo/bamboo-home/temp\nbamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planKey=JB-GTC\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_repository_46497968_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nHOME=/home/bamboo\nbamboo_planRepository_1_branchName=develop\nPATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin\n build 15-Nov-2024 00:11:29 build 15-Nov-2024 00:11:29 > Configure project : build 15-Nov-2024 00:11:29 Using properties from file './utils/channels/test-release/channel_gradle.properties' build 15-Nov-2024 00:11:29 JALVIEW_VERSION is set to '2.11.4.2' build 15-Nov-2024 00:11:29 HEADLESS BUILD build 15-Nov-2024 00:11:29 J2S ENABLED build 15-Nov-2024 00:11:29 Setting jalviewjs_ignore_transpile_errors to 'false' build 15-Nov-2024 00:11:29 Using a TEST-RELEASE profile. build 15-Nov-2024 00:11:29 eclipseDir exists build 15-Nov-2024 00:11:29 build 15-Nov-2024 00:11:29 > Task :getdownImagesCopy build 15-Nov-2024 00:11:30 > Task :getdownImagesProcess build 15-Nov-2024 00:11:30 > Task :getdownImages build 15-Nov-2024 00:11:30 > Task :cleanPackageDir build 15-Nov-2024 00:11:30 > Task :copyHelp UP-TO-DATE build 15-Nov-2024 00:11:31 > Task :buildIndices build 15-Nov-2024 00:11:31 > Task :copyResources UP-TO-DATE build 15-Nov-2024 00:11:31 > Task :copyChannelResources UP-TO-DATE build 15-Nov-2024 00:11:31 build 15-Nov-2024 00:11:31 > Task :createBuildProperties build 15-Nov-2024 00:11:31 Execution optimizations have been disabled for task ':createBuildProperties' to ensure correctness due to the following reasons: build 15-Nov-2024 00:11:31 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':createBuildProperties' uses this output of task ':copyChannelResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:31 build 15-Nov-2024 00:11:31 > Task :buildResources build 15-Nov-2024 00:11:31 > Task :copyDocs build 15-Nov-2024 00:11:31 build 15-Nov-2024 00:11:31 > Task :convertMdFiles build 15-Nov-2024 00:11:31 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/README-DMG_creation.html build 15-Nov-2024 00:11:31 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/releaseprocess.html build 15-Nov-2024 00:11:31 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/README-DMG_background_image_creation.html build 15-Nov-2024 00:11:31 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/building.html build 15-Nov-2024 00:11:31 Creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build/doc/jalview-projects.html build 15-Nov-2024 00:11:32 build 15-Nov-2024 00:11:32 > Task :releasesTemplates build 15-Nov-2024 00:11:32 Execution optimizations have been disabled for task ':releasesTemplates' to ensure correctness due to the following reasons: build 15-Nov-2024 00:11:32 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build/help/html/releases.html'. Reason: Task ':buildIndices' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:32 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build/help/html/whatsNew.html'. Reason: Task ':buildIndices' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:32 Stripping rc/test/etc for 2_11_4_2-test build 15-Nov-2024 00:11:32 Looking in /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/help/markdown/whatsnew/whatsnew-2_11_4_2.md build 15-Nov-2024 00:11:32 build 15-Nov-2024 00:11:32 > Task :prepare build 15-Nov-2024 00:11:33 build 15-Nov-2024 00:11:33 > Task :compileJava build 15-Nov-2024 00:11:33 Setting target compatibility to 1.8 error 15-Nov-2024 00:11:39 Note: Some input files use or override a deprecated API. error 15-Nov-2024 00:11:39 Note: Recompile with -Xlint:deprecation for details. error 15-Nov-2024 00:11:39 Note: Some input files use unchecked or unsafe operations. error 15-Nov-2024 00:11:39 Note: Recompile with -Xlint:unchecked for details. build 15-Nov-2024 00:11:39 build 15-Nov-2024 00:11:39 > Task :processResources build 15-Nov-2024 00:11:39 Execution optimizations have been disabled for task ':processResources' to ensure correctness due to the following reasons: build 15-Nov-2024 00:11:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build'. Reason: Task ':processResources' uses this output of task ':convertMdFiles' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/doc_build'. Reason: Task ':processResources' uses this output of task ':copyDocs' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':buildIndices' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':copyHelp' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/help_build'. Reason: Task ':processResources' uses this output of task ':releasesTemplates' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':copyChannelResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':copyResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:39 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':processResources' uses this output of task ':createBuildProperties' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:39 build 15-Nov-2024 00:11:39 > Task :classes build 15-Nov-2024 00:11:41 build 15-Nov-2024 00:11:41 > Task :compileLinkCheck build 15-Nov-2024 00:11:41 Execution optimizations have been disabled for task ':compileLinkCheck' to ensure correctness due to the following reasons: build 15-Nov-2024 00:11:41 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/utils'. Reason: Task ':convertMdFiles' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:41 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/utils'. Reason: Task ':copyChannelResources' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:41 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/utils'. Reason: Task ':getdownImagesCopy' uses this output of task ':compileLinkCheck' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:11:43 build 15-Nov-2024 00:11:43 > Task :linkCheck build 15-Nov-2024 00:11:43 Checking help file links build 15-Nov-2024 00:13:48 build 15-Nov-2024 00:13:48 Results: build 15-Nov-2024 00:13:48 159 distinct help targets build 15-Nov-2024 00:13:48 159 help mappings build 15-Nov-2024 00:13:48 0 invalid targets build 15-Nov-2024 00:13:48 32 unused targets build 15-Nov-2024 00:13:48 uniprotfetcher: html/features/uniprotsequencefetcher.html build 15-Nov-2024 00:13:48 overviewprefs: html/features/preferences.html#overview build 15-Nov-2024 00:13:48 cdnafeatures: html/features/codingfeatures.html build 15-Nov-2024 00:13:48 startupprefs: html/features/preferences.html#startup build 15-Nov-2024 00:13:48 ensemblfetch: html/features/ensemblsequencefetcher.html build 15-Nov-2024 00:13:48 io.modellerpir: html/io/modellerpir.html build 15-Nov-2024 00:13:48 structureandpaefromfile: html/features/structurechooser.html#loadfromfile build 15-Nov-2024 00:13:48 pdbmcviewer: html/features/pdbviewer.html build 15-Nov-2024 00:13:48 workingwithpae: html/features/paematrices.html build 15-Nov-2024 00:13:48 groovy.colours: html/features/groovy.html#groovyColours build 15-Nov-2024 00:13:48 seqmappings: html/features/seqmappings.html build 15-Nov-2024 00:13:48 uniprotfts: html/features/uniprotsequencefetcher.html#uniprotfts build 15-Nov-2024 00:13:48 splitframe.mirrorfonts: html/features/splitView.html#mirror build 15-Nov-2024 00:13:48 subtMatrices.pam250: html/calculations/scorematrices.html#pam250 build 15-Nov-2024 00:13:48 search: html/features/search.html build 15-Nov-2024 00:13:48 viewingpdbs.reps: html/features/viewingpdbs.html#viewreps build 15-Nov-2024 00:13:48 alformats: html/io/fileformats.html build 15-Nov-2024 00:13:48 strucprefs: html/features/preferences.html#structure build 15-Nov-2024 00:13:48 siftsmapping: html/features/siftsmapping.html build 15-Nov-2024 00:13:48 chimera.annotxfer: html/features/chimera.html#annotxfer build 15-Nov-2024 00:13:48 pdbfts: html/features/pdbsequencefetcher.html#pdbfts build 15-Nov-2024 00:13:48 newkeys: html/features/newkeystrokes.html build 15-Nov-2024 00:13:48 importvcf.attribs: html/features/importvcf.html#attribs build 15-Nov-2024 00:13:48 seqfeatures.settings.selcols: html/features/featuresettings.html#selectbyfeature build 15-Nov-2024 00:13:48 structuresvia3dbeacons: html/features/structurechooser.html#3dbeaconssearch build 15-Nov-2024 00:13:48 jalarchive: html/features/jalarchive.html build 15-Nov-2024 00:13:48 newsreader: html/webServices/newsreader.html build 15-Nov-2024 00:13:48 jalviewcltool: html/features/commandline.html#script build 15-Nov-2024 00:13:48 popMenuAddref: html/menus/popupMenu.html#addrefannot build 15-Nov-2024 00:13:48 splitframe.virtualfeats: html/features/splitView.html#virtualfeats build 15-Nov-2024 00:13:48 paematrixformat: html/io/paematrixformat.html build 15-Nov-2024 00:13:48 overview: html/features/overview.html build 15-Nov-2024 00:13:48 0 invalid map urls build 15-Nov-2024 00:13:48 0 invalid image attributes build 15-Nov-2024 00:13:48 506 internal href links (110 with anchors) build 15-Nov-2024 00:13:48 0 invalid internal href links build 15-Nov-2024 00:13:48 0 invalid internal anchor links build 15-Nov-2024 00:13:48 112 external href links build 15-Nov-2024 00:13:48 External links not verified as internet not available build 15-Nov-2024 00:13:48 *** Success *** build 15-Nov-2024 00:13:49 build 15-Nov-2024 00:13:49 > Task :jar build 15-Nov-2024 00:13:53 > Task :syncJars build 15-Nov-2024 00:13:53 > Task :makeDist build 15-Nov-2024 00:13:54 > Task :getdownWebsiteBuild build 15-Nov-2024 00:13:55 build 15-Nov-2024 00:13:55 > Task :getdownDigest build 15-Nov-2024 00:13:55 Generating digest file './build/website/docroot/getdown/test-release/1.8/digest.txt'... build 15-Nov-2024 00:13:55 Generating digest file './build/website/docroot/getdown/test-release/1.8/digest2.txt'... error 15-Nov-2024 00:13:55 2024/11/15 00:13:54:262 WARNING Starting without install4j classes error 15-Nov-2024 00:13:55 2024/11/15 00:13:54:740 WARNING Starting without install4j classes build 15-Nov-2024 00:13:55 build 15-Nov-2024 00:13:55 > Task :getdown build 15-Nov-2024 00:13:55 LIKELY RSYNC COMMAND: build 15-Nov-2024 00:13:55 mkdir -p '/Volumes/jalview/docroot/getdown/test-release/1.8/' build 15-Nov-2024 00:13:55 rsync -avh --delete './build/website/docroot/getdown/test-release/1.8/' '/Volumes/jalview/docroot/getdown/test-release/1.8/' build 15-Nov-2024 00:14:02 build 15-Nov-2024 00:14:02 > Task :shadowJar build 15-Nov-2024 00:14:02 build 15-Nov-2024 00:14:02 Deprecated Gradle features were used in this build, making it incompatible with Gradle 8.0. build 15-Nov-2024 00:14:02 build 15-Nov-2024 00:14:02 You can use '--warning-mode all' to show the individual deprecation warnings and determine if they come from your own scripts or plugins. build 15-Nov-2024 00:14:02 build 15-Nov-2024 00:14:02 See https://docs.gradle.org/7.4.2/userguide/command_line_interface.html#sec:command_line_warnings build 15-Nov-2024 00:14:02 build 15-Nov-2024 00:14:02 Execution optimizations have been disabled for 4 invalid unit(s) of work during this build to ensure correctness. build 15-Nov-2024 00:14:02 Please consult deprecation warnings for more details. build 15-Nov-2024 00:14:02 build 15-Nov-2024 00:14:02 BUILD SUCCESSFUL in 2m 33s build 15-Nov-2024 00:14:02 21 actionable tasks: 18 executed, 3 up-to-date simple 15-Nov-2024 00:14:02 Finished task 'Jalview 1.8 build' with result: Success command 15-Nov-2024 00:14:02 Substituting variable: ${bamboo.CHANNEL} with TEST-RELEASE command 15-Nov-2024 00:14:02 Substituting variable: ${bamboo.planKey} with JB-GTC simple 15-Nov-2024 00:14:02 Starting task 'JalviewJS ${bamboo.CHANNEL} release' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' simple 15-Nov-2024 00:14:02 Bamboo Artifactory Plugin version: 2.6.2 command 15-Nov-2024 00:14:02 Beginning to execute external process for build 'Jalview Builds - Getdown TEST_RELEASE Channel - Default Job #15 (JB-GTC-JOB1-15)'\n ... running command line: \n/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC --info eclipse jalviewjsCreateJ2sSettings jalviewjs\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=develop\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nCATALINA_PID=/home/bamboo/latest/work/bamboo.pid\nbamboo_planRepository_1_branchDisplayName=develop\nbamboo_repository_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nJAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GTC-JOB1\nbamboo_shortPlanName=Getdown TEST_RELEASE Channel\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497968_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nLOGNAME=bamboo\nbamboo_buildNumber=15\nPWD=/\nbamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nSHELL=/bin/bash\nbamboo_repository_46497968_git_username=\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown TEST_RELEASE Channel\nbamboo_shortPlanKey=GTC\nbamboo_repository_46497968_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildTimeStamp=2024-11-15T00:00:00.311Z\nbamboo_repository_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_repository_git_branch=develop\nbamboo_buildResultKey=JB-GTC-JOB1-15\nbamboo_repository_branch_name=develop\nbamboo_buildPlanName=Jalview Builds - Getdown TEST_RELEASE Channel - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nSHLVL=1\nbamboo_CHANNEL=TEST-RELEASE\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_repository_46497968_name=Jalview Git\nbamboo_repository_name=Jalview Git\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_2=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GTC clean getdown shadowJar\nJAVA_HOME=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/\nLANG=en_GB.UTF-8\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=develop\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_branchDisplayName=develop\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=develop\n_=/usr/bin/java\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301535\nbamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle\nbamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=gitv2\nbamboo_repository_46497968_git_branch=develop\nbamboo_repository_46497968_branch_name=develop\nUSER=bamboo\nbamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_capability_system_builder_ant_Ant=/usr/share/ant\nbamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven\nbamboo_tmp_directory=/srv/bamboo/bamboo-home/temp\nbamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planKey=JB-GTC\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_repository_46497968_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_8=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=1.8 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC getdown shadowJar\nHOME=/home/bamboo\nbamboo_planRepository_1_branchName=develop\nPATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin\n build 15-Nov-2024 00:14:03 Initialized native services in: /srv/bamboo/home/bamboo/.gradle/native build 15-Nov-2024 00:14:03 Initialized jansi services in: /srv/bamboo/home/bamboo/.gradle/native build 15-Nov-2024 00:14:03 The client will now receive all logging from the daemon (pid: 17623). The daemon log file: /srv/bamboo/home/bamboo/.gradle/daemon/7.4.2/daemon-17623.out.log build 15-Nov-2024 00:14:03 Starting 6th build in daemon [uptime: 13 mins 49.642 secs, performance: 100%, non-heap usage: 37% of 256 MiB] build 15-Nov-2024 00:14:03 Using 4 worker leases. build 15-Nov-2024 00:14:03 Watching the file system is configured to be enabled if available build 15-Nov-2024 00:14:03 File system watching is inactive build 15-Nov-2024 00:14:03 Starting Build build 15-Nov-2024 00:14:03 Settings evaluated using settings file '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/settings.gradle'. build 15-Nov-2024 00:14:03 Projects loaded. Root project using build file '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build.gradle'. build 15-Nov-2024 00:14:03 Included projects: [root project 'jalview'] build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Configure project : build 15-Nov-2024 00:14:03 Evaluating root project 'jalview' using build file '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build.gradle'. build 15-Nov-2024 00:14:03 Using properties from file './utils/channels/test-release/channel_gradle.properties' build 15-Nov-2024 00:14:03 JALVIEW_VERSION is set to '2.11.4.2' build 15-Nov-2024 00:14:03 HEADLESS BUILD build 15-Nov-2024 00:14:03 J2S ENABLED build 15-Nov-2024 00:14:03 Setting jalviewjs_ignore_transpile_errors to 'false' build 15-Nov-2024 00:14:03 Using a TEST-RELEASE profile. build 15-Nov-2024 00:14:03 file or directory '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/main/java', not found build 15-Nov-2024 00:14:03 eclipseDir exists build 15-Nov-2024 00:14:03 All projects evaluated. build 15-Nov-2024 00:14:03 Selected primary task 'eclipse' from project : build 15-Nov-2024 00:14:03 Selected primary task 'jalviewjsCreateJ2sSettings' from project : build 15-Nov-2024 00:14:03 Selected primary task 'jalviewjs' from project : build 15-Nov-2024 00:14:03 Tasks to be executed: [task ':eclipseClasspath', task ':eclipseJdt', task ':eclipseProject', task ':eclipse', task ':jalviewjsCreateJ2sSettings', task ':jalviewjsEclipsePaths', task ':jalviewjsEclipseCopyDropins', task ':jalviewjsSetEclipseWorkspace', task ':jalviewjsEclipseSetup', task ':jalviewjsEnableAltFileProperty', task ':eclipseSetup', task ':jalviewjsProjectImport', task ':jalviewjsTranspile', task ':jalviewjsCopyTransferSiteJs', task ':jalviewjsTransferUnzipLib', task ':jalviewjsTransferUnzipSwingJs', task ':jalviewjsTransferUnzipAllLibs', task ':jalviewjsSyncAllLibs', task ':copyResources', task ':createBuildProperties', task ':jalviewjsSyncBuildProperties', task ':jalviewjsBuildAllCores', task ':jalviewjsPublishCoreTemplates', task ':jalviewjsSyncCore', task ':copyChannelResources', task ':buildResources', task ':jalviewjsSyncResources', task ':jalviewjsSyncSiteResources', task ':jalviewjsPrepareSite', task ':jalviewjsBuildSite', task ':cleanJalviewjsChromiumUserDir', task ':jalviewjsChromiumProfile', task ':jalviewjsCopyStderrLaunchFile', task ':jalviewjsLaunchTest', task ':jalviewjs'] build 15-Nov-2024 00:14:03 Tasks that were excluded: [] build 15-Nov-2024 00:14:03 :eclipseClasspath (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :eclipseClasspath build 15-Nov-2024 00:14:03 Caching disabled for task ':eclipseClasspath' because: build 15-Nov-2024 00:14:03 Build cache is disabled build 15-Nov-2024 00:14:03 Task ':eclipseClasspath' is not up-to-date because: build 15-Nov-2024 00:14:03 Task.upToDateWhen is false. build 15-Nov-2024 00:14:03 :eclipseClasspath (Thread[Execution worker for ':',5,main]) completed. Took 0.039 secs. build 15-Nov-2024 00:14:03 :eclipseJdt (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :eclipseJdt build 15-Nov-2024 00:14:03 Caching disabled for task ':eclipseJdt' because: build 15-Nov-2024 00:14:03 Build cache is disabled build 15-Nov-2024 00:14:03 Task ':eclipseJdt' is not up-to-date because: build 15-Nov-2024 00:14:03 Task.upToDateWhen is false. build 15-Nov-2024 00:14:03 :eclipseJdt (Thread[Execution worker for ':',5,main]) completed. Took 0.043 secs. build 15-Nov-2024 00:14:03 :eclipseProject (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :eclipseProject build 15-Nov-2024 00:14:03 Caching disabled for task ':eclipseProject' because: build 15-Nov-2024 00:14:03 Build cache is disabled build 15-Nov-2024 00:14:03 Task ':eclipseProject' is not up-to-date because: build 15-Nov-2024 00:14:03 Task.upToDateWhen is false. build 15-Nov-2024 00:14:03 :eclipseProject (Thread[Execution worker for ':',5,main]) completed. Took 0.004 secs. build 15-Nov-2024 00:14:03 :eclipse (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :eclipse build 15-Nov-2024 00:14:03 Skipping task ':eclipse' as it has no actions. build 15-Nov-2024 00:14:03 :eclipse (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:14:03 :jalviewjsCreateJ2sSettings (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :jalviewjsCreateJ2sSettings build 15-Nov-2024 00:14:03 Caching disabled for task ':jalviewjsCreateJ2sSettings' because: build 15-Nov-2024 00:14:03 Build cache is disabled build 15-Nov-2024 00:14:03 Task ':jalviewjsCreateJ2sSettings' is not up-to-date because: build 15-Nov-2024 00:14:03 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/config/j2s has been removed. build 15-Nov-2024 00:14:03 Output property 'outputFile' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/config/j2s has been removed. build 15-Nov-2024 00:14:03 :jalviewjsCreateJ2sSettings (Thread[Execution worker for ':',5,main]) completed. Took 0.002 secs. build 15-Nov-2024 00:14:03 :jalviewjsEclipsePaths (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :jalviewjsEclipsePaths build 15-Nov-2024 00:14:03 Caching disabled for task ':jalviewjsEclipsePaths' because: build 15-Nov-2024 00:14:03 Build cache is disabled build 15-Nov-2024 00:14:03 Task ':jalviewjsEclipsePaths' is not up-to-date because: build 15-Nov-2024 00:14:03 Task has not declared any outputs despite executing actions. build 15-Nov-2024 00:14:03 Running task jalviewjsEclipsePaths as IN_ECLIPSE=false build 15-Nov-2024 00:14:03 ECLIPSE VERSION=4.28.0 build 15-Nov-2024 00:14:03 :jalviewjsEclipsePaths (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:14:03 :jalviewjsEclipseCopyDropins (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :jalviewjsEclipseCopyDropins build 15-Nov-2024 00:14:03 Caching disabled for task ':jalviewjsEclipseCopyDropins' because: build 15-Nov-2024 00:14:03 Build cache is disabled build 15-Nov-2024 00:14:03 Task ':jalviewjsEclipseCopyDropins' is not up-to-date because: build 15-Nov-2024 00:14:03 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/eclipse_dropins has been removed. build 15-Nov-2024 00:14:03 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/eclipse_dropins/com.seeq.eclipse.importprojects.jar has been removed. build 15-Nov-2024 00:14:03 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/eclipse_dropins/net.sf.j2s.core-j11.jar has been removed. build 15-Nov-2024 00:14:03 :jalviewjsEclipseCopyDropins (Thread[Execution worker for ':',5,main]) completed. Took 0.048 secs. build 15-Nov-2024 00:14:03 :jalviewjsSetEclipseWorkspace (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :jalviewjsSetEclipseWorkspace build 15-Nov-2024 00:14:03 Caching disabled for task ':jalviewjsSetEclipseWorkspace' because: build 15-Nov-2024 00:14:03 Build cache is disabled build 15-Nov-2024 00:14:03 Task ':jalviewjsSetEclipseWorkspace' is not up-to-date because: build 15-Nov-2024 00:14:03 Task.upToDateWhen is false. build 15-Nov-2024 00:14:03 Running task jalviewjsSetEclipseWorkspace as IN_ECLIPSE=false build 15-Nov-2024 00:14:03 NEW ECLIPSE WORKSPACE: /tmp/groovy-generated-tmpdir-1639898769429182852 build 15-Nov-2024 00:14:03 :jalviewjsSetEclipseWorkspace (Thread[Execution worker for ':',5,main]) completed. Took 0.003 secs. build 15-Nov-2024 00:14:03 :jalviewjsEclipseSetup (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :jalviewjsEclipseSetup build 15-Nov-2024 00:14:03 Skipping task ':jalviewjsEclipseSetup' as it has no actions. build 15-Nov-2024 00:14:03 :jalviewjsEclipseSetup (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:14:03 :jalviewjsEnableAltFileProperty (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :jalviewjsEnableAltFileProperty UP-TO-DATE build 15-Nov-2024 00:14:03 Caching disabled for task ':jalviewjsEnableAltFileProperty' because: build 15-Nov-2024 00:14:03 Build cache is disabled build 15-Nov-2024 00:14:03 Skipping task ':jalviewjsEnableAltFileProperty' as it is up-to-date. build 15-Nov-2024 00:14:03 :jalviewjsEnableAltFileProperty (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:14:03 :eclipseSetup (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:03 build 15-Nov-2024 00:14:03 > Task :eclipseSetup build 15-Nov-2024 00:14:03 Skipping task ':eclipseSetup' as it has no actions. build 15-Nov-2024 00:14:03 :eclipseSetup (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:14:03 :jalviewjsProjectImport (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:05 build 15-Nov-2024 00:14:05 > Task :jalviewjsProjectImport build 15-Nov-2024 00:14:05 Caching disabled for task ':jalviewjsProjectImport' because: error 15-Nov-2024 00:14:05 SLF4J: No SLF4J providers were found. error 15-Nov-2024 00:14:05 SLF4J: Defaulting to no-operation (NOP) logger implementation error 15-Nov-2024 00:14:05 SLF4J: See https://www.slf4j.org/codes.html#noProviders for further details. build 15-Nov-2024 00:14:05 Build cache is disabled build 15-Nov-2024 00:14:05 Task ':jalviewjsProjectImport' is not up-to-date because: build 15-Nov-2024 00:14:05 Task.upToDateWhen is false. build 15-Nov-2024 00:14:05 Running task jalviewjsProjectImport as IN_ECLIPSE=false build 15-Nov-2024 00:14:05 Starting process 'command '/home/bamboo/buildtools/eclipse/latest/eclipse/eclipse''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 Command: /home/bamboo/buildtools/eclipse/latest/eclipse/eclipse -nosplash --launcher.suppressErrors -application com.seeq.eclipse.importprojects.headlessimport -data /tmp/groovy-generated-tmpdir-1639898769429182852 -import /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 --launcher.appendVmargs -vmargs -Dorg.eclipse.equinox.p2.reconciler.dropins.directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/eclipse_dropins -Dnet.sf.j2s.core.headlessbuild=true -Dorg.jalview.jalviewjsj2sfilename=./build/jalviewjs/config/j2s build 15-Nov-2024 00:14:05 Successfully started process 'command '/home/bamboo/buildtools/eclipse/latest/eclipse/eclipse'' build 15-Nov-2024 00:14:16 :jalviewjsProjectImport (Thread[Execution worker for ':',5,main]) completed. Took 12.468 secs. build 15-Nov-2024 00:14:16 :jalviewjsTranspile (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:14:18 build 15-Nov-2024 00:14:18 > Task :jalviewjsTranspile build 15-Nov-2024 00:14:18 Caching disabled for task ':jalviewjsTranspile' because: build 15-Nov-2024 00:14:18 Build cache is disabled build 15-Nov-2024 00:14:18 Task ':jalviewjsTranspile' is not up-to-date because: build 15-Nov-2024 00:14:18 Task.upToDateWhen is false. build 15-Nov-2024 00:14:18 Running task jalviewjsTranspile as IN_ECLIPSE=false build 15-Nov-2024 00:14:18 Starting process 'command '/home/bamboo/buildtools/eclipse/latest/eclipse/eclipse''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 Command: /home/bamboo/buildtools/eclipse/latest/eclipse/eclipse -nosplash --launcher.suppressErrors -application org.eclipse.jdt.apt.core.aptBuild -data /tmp/groovy-generated-tmpdir-1639898769429182852 -cleanBuild jalview --launcher.appendVmargs -vmargs -Dorg.eclipse.equinox.p2.reconciler.dropins.directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/eclipse_dropins -Dnet.sf.j2s.core.headlessbuild=true -Dorg.jalview.jalviewjsj2sfilename=./build/jalviewjs/config/j2s build 15-Nov-2024 00:14:18 Successfully started process 'command '/home/bamboo/buildtools/eclipse/latest/eclipse/eclipse'' error 15-Nov-2024 00:14:18 SLF4J: No SLF4J providers were found. error 15-Nov-2024 00:14:18 SLF4J: Defaulting to no-operation (NOP) logger implementation error 15-Nov-2024 00:14:18 SLF4J: See https://www.slf4j.org/codes.html#noProviders for further details. build 15-Nov-2024 00:14:18 Invoking 'Java Builder' on '/jalview'. build 15-Nov-2024 00:14:19 net.sf.j2s.core.3.3.1/3.3.1-v1 started build 15-Nov-2024 00:14:19 J2S CompilationParticipant started build 15-Nov-2024 00:14:19 J2S isActive true /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 build 15-Nov-2024 00:14:19 J2S aboutToBuild jalview /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 build 15-Nov-2024 00:14:20 J2S cleanStarting /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 build 15-Nov-2024 00:14:20 Cleaning output folder for jalview build 15-Nov-2024 00:14:21 Build done build 15-Nov-2024 00:14:21 Invoking 'Gradle Project Builder' on '/jalview'. build 15-Nov-2024 00:14:21 Invoking 'Java Builder' on '/jalview'. build 15-Nov-2024 00:14:21 J2S aboutToBuild jalview /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 build 15-Nov-2024 00:14:21 Preparing to build jalview build 15-Nov-2024 00:14:21 Cleaning output folder for jalview build 15-Nov-2024 00:14:21 J2S cleanStarting /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 build 15-Nov-2024 00:14:21 Copying resources to the output folder build 15-Nov-2024 00:14:21 Analyzing sources build 15-Nov-2024 00:14:21 J2S buildStarting 1103 files, contexts.size() = 1, isBatch=true build 15-Nov-2024 00:14:21 Compiling jalview/src/com/github/reinert/jjschema build 15-Nov-2024 00:14:23 Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:23 (Found 1 warning) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:23 (Found 2 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:23 (Found 3 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:23 (Found 4 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:23 (Found 5 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:23 (Found 9 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:23 (Found 12 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:23 (Found 13 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 14 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 15 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 37 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 38 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 46 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 47 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 48 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 49 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 50 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 51 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 52 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 59 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 63 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 67 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 69 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 89 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 90 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 91 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 98 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 108 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 113 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 114 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 115 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 119 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 120 warnings) Compiling jalview/src/com/stevesoft/pat build 15-Nov-2024 00:14:24 (Found 120 warnings) Compiling jalview/src/com/stevesoft/pat/wrap build 15-Nov-2024 00:14:24 (Found 124 warnings) Compiling jalview/src/darrylbu/util build 15-Nov-2024 00:14:24 (Found 124 warnings) Compiling jalview/src/ext/edu/ucsf/rbvi/strucviz2 build 15-Nov-2024 00:14:24 (Found 126 warnings) Compiling jalview/src/ext/edu/ucsf/rbvi/strucviz2 build 15-Nov-2024 00:14:24 (Found 135 warnings) Compiling jalview/src/ext/edu/ucsf/rbvi/strucviz2 build 15-Nov-2024 00:14:24 (Found 138 warnings) Compiling jalview/src/ext/edu/ucsf/rbvi/strucviz2/port build 15-Nov-2024 00:14:24 (Found 138 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 145 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 152 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 190 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 197 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 253 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 285 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 292 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 360 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 363 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 366 warnings) Compiling jalview/src/ext/vamsas build 15-Nov-2024 00:14:25 (Found 368 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 372 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 377 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 382 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 415 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 423 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 424 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 425 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 426 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 428 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 429 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 430 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 436 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 443 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 469 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 473 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 474 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 509 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 573 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 574 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 580 warnings) Compiling jalview/src/jalview/analysis build 15-Nov-2024 00:14:25 (Found 580 warnings) Compiling jalview/src/jalview/analysis/scoremodels build 15-Nov-2024 00:14:25 (Found 583 warnings) Compiling jalview/src/jalview/analysis/scoremodels build 15-Nov-2024 00:14:25 (Found 593 warnings) Compiling jalview/src/jalview/analytics build 15-Nov-2024 00:14:25 (Found 593 warnings) Compiling jalview/src/jalview/api build 15-Nov-2024 00:14:25 (Found 593 warnings) Compiling jalview/src/jalview/api/analysis build 15-Nov-2024 00:14:25 (Found 595 warnings) Compiling jalview/src/jalview/api/structures build 15-Nov-2024 00:14:26 (Found 598 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 654 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 663 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 664 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 669 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 670 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 672 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 683 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 685 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 690 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 691 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 692 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 693 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 695 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 697 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 698 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 700 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 701 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 706 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 707 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 708 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 710 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 711 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 713 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 721 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 731 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 732 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 733 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 735 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 736 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 741 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:26 (Found 744 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:27 (Found 781 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:27 (Found 783 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:27 (Found 784 warnings) Compiling jalview/src/jalview/appletgui build 15-Nov-2024 00:14:27 (Found 784 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 788 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 791 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 792 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 799 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 801 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 3 errors + 859 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 3 errors + 864 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 3 errors + 866 warnings) Compiling jalview/src/jalview/bin build 15-Nov-2024 00:14:27 (Found 3 errors + 866 warnings) Compiling jalview/src/jalview/bin/argparser build 15-Nov-2024 00:14:27 (Found 3 errors + 867 warnings) Compiling jalview/src/jalview/bin/argparser build 15-Nov-2024 00:14:27 (Found 3 errors + 869 warnings) Compiling jalview/src/jalview/bin/argparser build 15-Nov-2024 00:14:27 (Found 3 errors + 870 warnings) Compiling jalview/src/jalview/bin/argparser build 15-Nov-2024 00:14:27 (Found 3 errors + 870 warnings) Compiling jalview/src/jalview/bin/groovy build 15-Nov-2024 00:14:27 (Found 3 errors + 870 warnings) Compiling jalview/src/jalview/commands build 15-Nov-2024 00:14:27 (Found 3 errors + 870 warnings) Compiling jalview/src/jalview/controller build 15-Nov-2024 00:14:27 (Found 3 errors + 870 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 883 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 884 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 885 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 888 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 889 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 890 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 896 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 900 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 902 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 903 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 904 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 905 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 910 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:27 (Found 3 errors + 911 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 919 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 920 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 921 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 924 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 930 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 934 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 938 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 940 warnings) Compiling jalview/src/jalview/datamodel build 15-Nov-2024 00:14:28 (Found 3 errors + 941 warnings) Compiling jalview/src/jalview/datamodel/annotations build 15-Nov-2024 00:14:28 (Found 3 errors + 941 warnings) Compiling jalview/src/jalview/datamodel/features build 15-Nov-2024 00:14:28 (Found 3 errors + 941 warnings) Compiling jalview/src/jalview/exceptions build 15-Nov-2024 00:14:28 (Found 3 errors + 941 warnings) Compiling jalview/src/jalview/ext/android build 15-Nov-2024 00:14:28 (Found 3 errors + 941 warnings) Compiling jalview/src/jalview/ext/ensembl build 15-Nov-2024 00:14:28 (Found 3 errors + 943 warnings) Compiling jalview/src/jalview/ext/ensembl build 15-Nov-2024 00:14:28 (Found 3 errors + 945 warnings) Compiling jalview/src/jalview/ext/ensembl build 15-Nov-2024 00:14:28 (Found 3 errors + 946 warnings) Compiling jalview/src/jalview/ext/ensembl build 15-Nov-2024 00:14:28 (Found 3 errors + 948 warnings) Compiling jalview/src/jalview/ext/ensembl build 15-Nov-2024 00:14:28 (Found 3 errors + 951 warnings) Compiling jalview/src/jalview/ext/htsjdk build 15-Nov-2024 00:14:28 (Found 3 errors + 952 warnings) Compiling jalview/src/jalview/ext/htsjdk build 15-Nov-2024 00:14:28 (Found 3 errors + 957 warnings) Compiling jalview/src/jalview/ext/jmol build 15-Nov-2024 00:14:28 (Found 3 errors + 961 warnings) Compiling jalview/src/jalview/ext/paradise build 15-Nov-2024 00:14:28 (Found 3 errors + 961 warnings) Compiling jalview/src/jalview/ext/pymol build 15-Nov-2024 00:14:28 (Found 3 errors + 963 warnings) Compiling jalview/src/jalview/ext/pymol build 15-Nov-2024 00:14:28 (Found 3 errors + 963 warnings) Compiling jalview/src/jalview/ext/rbvi/chimera build 15-Nov-2024 00:14:28 (Found 3 errors + 964 warnings) Compiling jalview/src/jalview/ext/rbvi/chimera build 15-Nov-2024 00:14:28 (Found 3 errors + 965 warnings) Compiling jalview/src/jalview/ext/rbvi/chimera build 15-Nov-2024 00:14:28 (Found 3 errors + 965 warnings) Compiling jalview/src/jalview/ext/so build 15-Nov-2024 00:14:28 (Found 3 errors + 965 warnings) Compiling jalview/src/jalview/ext/varna build 15-Nov-2024 00:14:28 (Found 3 errors + 965 warnings) Compiling jalview/src/jalview/fts/api build 15-Nov-2024 00:14:28 (Found 3 errors + 966 warnings) Compiling jalview/src/jalview/fts/api build 15-Nov-2024 00:14:28 (Found 3 errors + 967 warnings) Compiling jalview/src/jalview/fts/core build 15-Nov-2024 00:14:28 (Found 3 errors + 970 warnings) Compiling jalview/src/jalview/fts/core build 15-Nov-2024 00:14:28 (Found 3 errors + 971 warnings) Compiling jalview/src/jalview/fts/core build 15-Nov-2024 00:14:28 (Found 3 errors + 972 warnings) Compiling jalview/src/jalview/fts/core build 15-Nov-2024 00:14:28 (Found 3 errors + 972 warnings) Compiling jalview/src/jalview/fts/service/alphafold build 15-Nov-2024 00:14:28 (Found 3 errors + 972 warnings) Compiling jalview/src/jalview/fts/service/pdb build 15-Nov-2024 00:14:29 (Found 3 errors + 979 warnings) Compiling jalview/src/jalview/fts/service/pdb build 15-Nov-2024 00:14:29 (Found 3 errors + 979 warnings) Compiling jalview/src/jalview/fts/service/threedbeacons build 15-Nov-2024 00:14:29 (Found 3 errors + 981 warnings) Compiling jalview/src/jalview/fts/service/threedbeacons build 15-Nov-2024 00:14:29 (Found 3 errors + 985 warnings) Compiling jalview/src/jalview/fts/service/threedbeacons build 15-Nov-2024 00:14:29 (Found 3 errors + 989 warnings) Compiling jalview/src/jalview/fts/service/uniprot build 15-Nov-2024 00:14:29 (Found 3 errors + 989 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 990 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 992 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 993 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 994 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 995 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 996 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 997 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 998 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1004 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1007 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1008 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1009 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1018 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1048 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1058 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1059 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1060 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1061 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1066 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1067 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:29 (Found 3 errors + 1068 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1073 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1074 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1078 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1083 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1084 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1086 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1087 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1088 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1089 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1090 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1096 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1097 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1098 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1099 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1100 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1102 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1103 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1104 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1107 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1109 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1116 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1118 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1120 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1121 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1122 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1124 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1128 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1137 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1146 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1149 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1150 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1151 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1153 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1154 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1156 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1162 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1165 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1166 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1204 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1209 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1210 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1237 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1240 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1247 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1305 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1318 warnings) Compiling jalview/src/jalview/gui build 15-Nov-2024 00:14:30 (Found 3 errors + 1320 warnings) Compiling jalview/src/jalview/gui/structurechooser build 15-Nov-2024 00:14:30 (Found 3 errors + 1322 warnings) Compiling jalview/src/jalview/gui/structurechooser build 15-Nov-2024 00:14:30 (Found 3 errors + 1327 warnings) Compiling jalview/src/jalview/gui/structurechooser build 15-Nov-2024 00:14:30 (Found 3 errors + 1327 warnings) Compiling jalview/src/jalview/httpserver build 15-Nov-2024 00:14:31 (Found 3 errors + 1327 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1332 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1334 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1336 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1338 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1358 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1360 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1362 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1366 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1369 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1370 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1371 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1372 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1410 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1413 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1415 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1435 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1468 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1470 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1472 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1473 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1474 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1487 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1549 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1550 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1551 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1633 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1638 warnings) Compiling jalview/src/jalview/io build 15-Nov-2024 00:14:31 (Found 3 errors + 1638 warnings) Compiling jalview/src/jalview/io/cache build 15-Nov-2024 00:14:31 (Found 3 errors + 1639 warnings) Compiling jalview/src/jalview/io/exceptions build 15-Nov-2024 00:14:31 (Found 3 errors + 1639 warnings) Compiling jalview/src/jalview/io/gff build 15-Nov-2024 00:14:31 (Found 3 errors + 1640 warnings) Compiling jalview/src/jalview/io/gff build 15-Nov-2024 00:14:31 (Found 3 errors + 1640 warnings) Compiling jalview/src/jalview/io/packed build 15-Nov-2024 00:14:31 (Found 3 errors + 1646 warnings) Compiling jalview/src/jalview/io/packed build 15-Nov-2024 00:14:31 (Found 3 errors + 1648 warnings) Compiling jalview/src/jalview/io/packed build 15-Nov-2024 00:14:31 (Found 3 errors + 1648 warnings) Compiling jalview/src/jalview/io/vamsas build 15-Nov-2024 00:14:31 (Found 3 errors + 1666 warnings) Compiling jalview/src/jalview/io/vamsas build 15-Nov-2024 00:14:31 (Found 3 errors + 1677 warnings) Compiling jalview/src/jalview/io/vamsas build 15-Nov-2024 00:14:31 (Found 3 errors + 1678 warnings) Compiling jalview/src/jalview/io/vamsas build 15-Nov-2024 00:14:31 (Found 3 errors + 1691 warnings) Compiling jalview/src/jalview/io/vamsas build 15-Nov-2024 00:14:31 (Found 3 errors + 1695 warnings) Compiling jalview/src/jalview/io/vamsas build 15-Nov-2024 00:14:31 (Found 3 errors + 1699 warnings) Compiling jalview/src/jalview/io/vamsas build 15-Nov-2024 00:14:31 (Found 3 errors + 1722 warnings) Compiling jalview/src/jalview/io/vamsas build 15-Nov-2024 00:14:31 (Found 3 errors + 1725 warnings) Compiling jalview/src/jalview/io/vcf build 15-Nov-2024 00:14:31 (Found 4 errors + 1734 warnings) Compiling jalview/src/jalview/javascript build 15-Nov-2024 00:14:31 (Found 4 errors + 1738 warnings) Compiling jalview/src/jalview/javascript build 15-Nov-2024 00:14:31 (Found 4 errors + 1739 warnings) Compiling jalview/src/jalview/javascript/json build 15-Nov-2024 00:14:31 (Found 4 errors + 1739 warnings) Compiling jalview/src/jalview/javascript/web build 15-Nov-2024 00:14:31 (Found 4 errors + 1740 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1741 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1742 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1745 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1746 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1747 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1748 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1749 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1752 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1754 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1762 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1763 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1764 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1769 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1771 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1772 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1775 warnings) Compiling jalview/src/jalview/jbgui build 15-Nov-2024 00:14:31 (Found 4 errors + 1775 warnings) Compiling jalview/src/jalview/json/binding/biojs build 15-Nov-2024 00:14:31 (Found 4 errors + 1775 warnings) Compiling jalview/src/jalview/json/binding/biojson/v1 build 15-Nov-2024 00:14:31 (Found 4 errors + 1778 warnings) Compiling jalview/src/jalview/log build 15-Nov-2024 00:14:31 (Found 4 errors + 1780 warnings) Compiling jalview/src/jalview/log build 15-Nov-2024 00:14:31 (Found 4 errors + 1781 warnings) Compiling jalview/src/jalview/log build 15-Nov-2024 00:14:31 (Found 4 errors + 1781 warnings) Compiling jalview/src/jalview/math build 15-Nov-2024 00:14:31 (Found 4 errors + 1782 warnings) Compiling jalview/src/jalview/math build 15-Nov-2024 00:14:31 (Found 4 errors + 1783 warnings) Compiling jalview/src/jalview/math build 15-Nov-2024 00:14:32 (Found 4 errors + 1809 warnings) Compiling jalview/src/jalview/project build 15-Nov-2024 00:14:32 (Found 4 errors + 1810 warnings) Compiling jalview/src/jalview/renderer build 15-Nov-2024 00:14:32 (Found 4 errors + 1811 warnings) Compiling jalview/src/jalview/renderer build 15-Nov-2024 00:14:32 (Found 4 errors + 1811 warnings) Compiling jalview/src/jalview/renderer/api build 15-Nov-2024 00:14:32 (Found 4 errors + 1811 warnings) Compiling jalview/src/jalview/renderer/seqfeatures build 15-Nov-2024 00:14:32 (Found 4 errors + 1811 warnings) Compiling jalview/src/jalview/rest build 15-Nov-2024 00:14:32 (Found 4 errors + 1811 warnings) Compiling jalview/src/jalview/schemes build 15-Nov-2024 00:14:32 (Found 4 errors + 1814 warnings) Compiling jalview/src/jalview/schemes build 15-Nov-2024 00:14:32 (Found 4 errors + 1814 warnings) Compiling jalview/src/jalview/structure build 15-Nov-2024 00:14:32 (Found 4 errors + 1815 warnings) Compiling jalview/src/jalview/structure build 15-Nov-2024 00:14:32 (Found 4 errors + 1816 warnings) Compiling jalview/src/jalview/structure build 15-Nov-2024 00:14:32 (Found 4 errors + 1821 warnings) Compiling jalview/src/jalview/structure build 15-Nov-2024 00:14:32 (Found 4 errors + 1822 warnings) Compiling jalview/src/jalview/structures/models build 15-Nov-2024 00:14:32 (Found 4 errors + 1822 warnings) Compiling jalview/src/jalview/urls build 15-Nov-2024 00:14:32 (Found 4 errors + 1823 warnings) Compiling jalview/src/jalview/urls build 15-Nov-2024 00:14:32 (Found 4 errors + 1823 warnings) Compiling jalview/src/jalview/urls/api build 15-Nov-2024 00:14:32 (Found 4 errors + 1823 warnings) Compiling jalview/src/jalview/urls/applet build 15-Nov-2024 00:14:32 (Found 4 errors + 1823 warnings) Compiling jalview/src/jalview/urls/desktop build 15-Nov-2024 00:14:32 (Found 4 errors + 1823 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1824 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1825 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1831 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1832 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1844 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1845 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1849 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1854 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1857 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1858 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1861 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1865 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1869 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1893 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1894 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1894 warnings) Compiling jalview/src/jalview/util/dialogrunner build 15-Nov-2024 00:14:32 (Found 4 errors + 1894 warnings) Compiling jalview/src/jalview/util/imagemaker build 15-Nov-2024 00:14:32 (Found 4 errors + 1894 warnings) Compiling jalview/src/jalview/util build 15-Nov-2024 00:14:32 (Found 4 errors + 1894 warnings) Compiling jalview/src/jalview/util/matcher build 15-Nov-2024 00:14:32 (Found 4 errors + 1894 warnings) Compiling jalview/src/jalview/viewmodel build 15-Nov-2024 00:14:32 (Found 4 errors + 1897 warnings) Compiling jalview/src/jalview/viewmodel build 15-Nov-2024 00:14:32 (Found 4 errors + 1897 warnings) Compiling jalview/src/jalview/viewmodel/annotationfilter build 15-Nov-2024 00:14:32 (Found 4 errors + 1898 warnings) Compiling jalview/src/jalview/viewmodel/seqfeatures build 15-Nov-2024 00:14:32 (Found 4 errors + 1898 warnings) Compiling jalview/src/jalview/viewmodel/styles build 15-Nov-2024 00:14:32 (Found 4 errors + 1898 warnings) Compiling jalview/src/jalview/workers build 15-Nov-2024 00:14:32 (Found 4 errors + 1902 warnings) Compiling jalview/src/jalview/workers build 15-Nov-2024 00:14:32 (Found 4 errors + 1902 warnings) Compiling jalview/src/jalview/ws build 15-Nov-2024 00:14:32 (Found 4 errors + 1904 warnings) Compiling jalview/src/jalview/ws build 15-Nov-2024 00:14:32 (Found 4 errors + 1908 warnings) Compiling jalview/src/jalview/ws build 15-Nov-2024 00:14:32 (Found 4 errors + 1908 warnings) Compiling jalview/src/jalview/ws/datamodel build 15-Nov-2024 00:14:32 (Found 4 errors + 1911 warnings) Compiling jalview/src/jalview/ws/datamodel/alphafold build 15-Nov-2024 00:14:32 (Found 4 errors + 1916 warnings) Compiling jalview/src/jalview/ws/datamodel/alphafold build 15-Nov-2024 00:14:32 (Found 4 errors + 1921 warnings) Compiling jalview/src/jalview/ws/dbsources build 15-Nov-2024 00:14:32 (Found 4 errors + 1922 warnings) Compiling jalview/src/jalview/ws/dbsources build 15-Nov-2024 00:14:32 (Found 4 errors + 1922 warnings) Compiling jalview/src/jalview/ws/ebi build 15-Nov-2024 00:14:32 (Found 4 errors + 1922 warnings) Compiling jalview/src/jalview/ws/io/mime build 15-Nov-2024 00:14:32 (Found 4 errors + 1922 warnings) Compiling jalview/src/jalview/ws/jws1 build 15-Nov-2024 00:14:32 (Found 4 errors + 1926 warnings) Compiling jalview/src/jalview/ws/jws1 build 15-Nov-2024 00:14:32 (Found 4 errors + 1934 warnings) Compiling jalview/src/jalview/ws/jws1 build 15-Nov-2024 00:14:32 (Found 4 errors + 1947 warnings) Compiling jalview/src/jalview/ws/jws1 build 15-Nov-2024 00:14:32 (Found 4 errors + 1961 warnings) Compiling jalview/src/jalview/ws/jws1 build 15-Nov-2024 00:14:32 (Found 4 errors + 1967 warnings) Compiling jalview/src/jalview/ws/jws1 build 15-Nov-2024 00:14:32 (Found 4 errors + 1968 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 1969 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 1979 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 1986 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2000 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2003 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2007 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2013 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2019 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2031 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2033 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2037 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2063 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2086 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2087 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2092 warnings) Compiling jalview/src/jalview/ws/jws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2098 warnings) Compiling jalview/src/jalview/ws/jws2/dm build 15-Nov-2024 00:14:32 (Found 4 errors + 2102 warnings) Compiling jalview/src/jalview/ws/jws2/dm build 15-Nov-2024 00:14:32 (Found 4 errors + 2105 warnings) Compiling jalview/src/jalview/ws/jws2/dm build 15-Nov-2024 00:14:32 (Found 4 errors + 2116 warnings) Compiling jalview/src/jalview/ws/jws2/dm build 15-Nov-2024 00:14:32 (Found 4 errors + 2123 warnings) Compiling jalview/src/jalview/ws/jws2/jabaws2 build 15-Nov-2024 00:14:32 (Found 4 errors + 2123 warnings) Compiling jalview/src/jalview/ws/params build 15-Nov-2024 00:14:32 (Found 4 errors + 2124 warnings) Compiling jalview/src/jalview/ws/params build 15-Nov-2024 00:14:32 (Found 4 errors + 2124 warnings) Compiling jalview/src/jalview/ws/params/simple build 15-Nov-2024 00:14:32 (Found 4 errors + 2125 warnings) Compiling jalview/src/jalview/ws/params/simple build 15-Nov-2024 00:14:32 (Found 4 errors + 2125 warnings) Compiling jalview/src/jalview/ws/rest build 15-Nov-2024 00:14:32 (Found 4 errors + 2126 warnings) Compiling jalview/src/jalview/ws/rest build 15-Nov-2024 00:14:32 (Found 4 errors + 2131 warnings) Compiling jalview/src/jalview/ws/rest build 15-Nov-2024 00:14:32 (Found 4 errors + 2132 warnings) Compiling jalview/src/jalview/ws/rest build 15-Nov-2024 00:14:33 (Found 4 errors + 2133 warnings) Compiling jalview/src/jalview/ws/rest build 15-Nov-2024 00:14:33 (Found 4 errors + 2139 warnings) Compiling jalview/src/jalview/ws/rest build 15-Nov-2024 00:14:33 (Found 4 errors + 2148 warnings) Compiling jalview/src/jalview/ws/rest build 15-Nov-2024 00:14:33 (Found 4 errors + 2154 warnings) Compiling jalview/src/jalview/ws/rest build 15-Nov-2024 00:14:33 (Found 4 errors + 2154 warnings) Compiling jalview/src/jalview/ws/rest/params build 15-Nov-2024 00:14:33 (Found 4 errors + 2157 warnings) Compiling jalview/src/jalview/ws/seqfetcher build 15-Nov-2024 00:14:33 (Found 4 errors + 2157 warnings) Compiling jalview/src/jalview/ws/sifts build 15-Nov-2024 00:14:33 (Found 4 errors + 2159 warnings) Compiling jalview/src/jalview/ws/sifts build 15-Nov-2024 00:14:33 (Found 4 errors + 2162 warnings) Compiling jalview/src/jalview/ws/uimodel build 15-Nov-2024 00:14:33 (Found 4 errors + 2162 warnings) Compiling jalview/src/jalview/ws/utils build 15-Nov-2024 00:14:33 (Found 4 errors + 2162 warnings) Compiling jalview/src/jalview/xml/binding/embl build 15-Nov-2024 00:14:33 (Found 4 errors + 2162 warnings) Compiling jalview/src/jalview/xml/binding/jalview build 15-Nov-2024 00:14:33 (Found 4 errors + 2162 warnings) Compiling jalview/src/jalview/xml/binding/sifts build 15-Nov-2024 00:14:33 (Found 4 errors + 2162 warnings) Compiling jalview/src/jalview/xml/binding/uniprot build 15-Nov-2024 00:14:33 (Found 4 errors + 2169 warnings) Compiling jalview/src/mc_view build 15-Nov-2024 00:14:33 (Found 4 errors + 2170 warnings) Compiling jalview/src/mc_view build 15-Nov-2024 00:14:33 (Found 4 errors + 2175 warnings) Compiling jalview/src/mc_view build 15-Nov-2024 00:14:33 (Found 4 errors + 2182 warnings) Compiling jalview/src/mc_view build 15-Nov-2024 00:14:33 (Found 4 errors + 2183 warnings) Compiling jalview/src/mc_view build 15-Nov-2024 00:14:33 (Found 4 errors + 2184 warnings) Compiling jalview/src/mc_view build 15-Nov-2024 00:14:33 (Found 4 errors + 2184 warnings) Compiling jalview/src/org/jibble/epsgraphics build 15-Nov-2024 00:14:33 (Found 4 errors + 2185 warnings) Compiling jalview/src/org/jibble/epsgraphics build 15-Nov-2024 00:14:33 (Found 4 errors + 2191 warnings) Compiling jalview/src/org/jibble/epsgraphics build 15-Nov-2024 00:14:33 (Found 4 errors + 2191 warnings) Compiling jalview/src/org/json build 15-Nov-2024 00:14:33 (Found 4 errors + 2193 warnings) Compiling jalview/src/org/json build 15-Nov-2024 00:14:33 (Found 4 errors + 2194 warnings) Compiling jalview/src/org/json build 15-Nov-2024 00:14:33 (Found 4 errors + 2205 warnings) Compiling jalview/src/org/json/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2211 warnings) Compiling jalview/src/org/json/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2220 warnings) Compiling jalview/src/org/json/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2222 warnings) Compiling jalview/src/org/json/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2224 warnings) Compiling jalview/src/org/json/simple/parser build 15-Nov-2024 00:14:33 (Found 4 errors + 2299 warnings) Compiling jalview/src/org/json/simple/parser build 15-Nov-2024 00:14:33 (Found 4 errors + 2303 warnings) Compiling jalview/src/org/json/simple/parser build 15-Nov-2024 00:14:33 (Found 4 errors + 2303 warnings) Compiling jalview/src/org/stackoverflowusers/file build 15-Nov-2024 00:14:33 (Found 4 errors + 2303 warnings) Compiling jalview/src/swingjs/api build 15-Nov-2024 00:14:33 (Found 4 errors + 2303 warnings) Compiling jalview/src/swingjs/api/js build 15-Nov-2024 00:14:33 (Found 4 errors + 2304 warnings) Compiling jalview/src/uk/ac/ebi/picr/model build 15-Nov-2024 00:14:33 (Found 4 errors + 2306 warnings) Compiling jalview/src/uk/ac/ebi/picr/model build 15-Nov-2024 00:14:33 (Found 4 errors + 2307 warnings) Compiling jalview/src/uk/ac/ebi/picr/model build 15-Nov-2024 00:14:33 (Found 4 errors + 2309 warnings) Compiling jalview/src/uk/ac/ebi/picr/model build 15-Nov-2024 00:14:33 (Found 4 errors + 2312 warnings) Compiling jalview/src/uk/ac/ebi/www build 15-Nov-2024 00:14:33 (Found 4 errors + 2315 warnings) Compiling jalview/src/uk/ac/ebi/www build 15-Nov-2024 00:14:33 (Found 4 errors + 2318 warnings) Compiling jalview/src/uk/ac/ebi/www build 15-Nov-2024 00:14:33 (Found 4 errors + 2325 warnings) Compiling jalview/src/uk/ac/ebi/www build 15-Nov-2024 00:14:33 (Found 4 errors + 2373 warnings) Compiling jalview/src/uk/ac/ebi/www build 15-Nov-2024 00:14:33 (Found 4 errors + 2415 warnings) Compiling jalview/src/uk/ac/ebi/www/picr/AccessionMappingService build 15-Nov-2024 00:14:33 (Found 4 errors + 2422 warnings) Compiling jalview/src/uk/ac/ebi/www/picr/AccessionMappingService build 15-Nov-2024 00:14:33 (Found 4 errors + 2422 warnings) Compiling jalview/src/vamsas build 15-Nov-2024 00:14:33 (Found 4 errors + 2423 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2425 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2426 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2428 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2429 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2431 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2432 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2434 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2435 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2437 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2438 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2440 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2441 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2443 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2444 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2446 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2447 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2448 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2450 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2452 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2453 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2455 warnings) Compiling jalview/src/vamsas/objects/simple build 15-Nov-2024 00:14:33 (Found 4 errors + 2455 warnings) Cleaning output folder for jalview build 15-Nov-2024 00:14:33 (Found 4 errors + 2455 warnings) Copying resources to the output folder build 15-Nov-2024 00:14:35 (Found 4 errors + 2455 warnings) Analyzing sources build 15-Nov-2024 00:14:35 J2S buildStarting 291 files, contexts.size() = 2, isBatch=true build 15-Nov-2024 00:14:35 (Found 4 errors + 2455 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:35 (Found 4 errors + 2463 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:35 (Found 4 errors + 2465 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:35 (Found 4 errors + 2478 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:35 (Found 4 errors + 2491 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:36 (Found 4 errors + 2492 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:36 (Found 4 errors + 2494 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:36 (Found 4 errors + 2535 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:36 (Found 4 errors + 2537 warnings) Compiling jalview/test/jalview/analysis build 15-Nov-2024 00:14:36 (Found 4 errors + 2537 warnings) Compiling jalview/test/jalview/analysis/scoremodels build 15-Nov-2024 00:14:36 (Found 4 errors + 2542 warnings) Compiling jalview/test/jalview/analysis/scoremodels build 15-Nov-2024 00:14:36 (Found 4 errors + 2543 warnings) Compiling jalview/test/jalview/analysis/scoremodels build 15-Nov-2024 00:14:36 (Found 4 errors + 2549 warnings) Compiling jalview/test/jalview/analysis/scoremodels build 15-Nov-2024 00:14:36 (Found 4 errors + 2550 warnings) Compiling jalview/test/jalview/bin build 15-Nov-2024 00:14:36 (Found 4 errors + 2551 warnings) Compiling jalview/test/jalview/bin build 15-Nov-2024 00:14:36 (Found 4 errors + 2552 warnings) Compiling jalview/test/jalview/bin build 15-Nov-2024 00:14:36 (Found 4 errors + 2555 warnings) Compiling jalview/test/jalview/bin/argparser build 15-Nov-2024 00:14:36 (Found 4 errors + 2562 warnings) Compiling jalview/test/jalview/commands build 15-Nov-2024 00:14:36 (Found 4 errors + 2563 warnings) Compiling jalview/test/jalview/controller build 15-Nov-2024 00:14:36 (Found 4 errors + 2563 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2564 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2577 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2578 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2580 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2589 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2590 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2592 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2593 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2595 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2596 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2597 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2600 warnings) Compiling jalview/test/jalview/datamodel build 15-Nov-2024 00:14:36 (Found 4 errors + 2601 warnings) Compiling jalview/test/jalview/datamodel/features build 15-Nov-2024 00:14:36 (Found 4 errors + 2602 warnings) Compiling jalview/test/jalview/datamodel/features build 15-Nov-2024 00:14:36 (Found 4 errors + 2602 warnings) Compiling jalview/test/jalview/ext/android build 15-Nov-2024 00:14:36 (Found 4 errors + 2602 warnings) Compiling jalview/test/jalview/ext/ensembl build 15-Nov-2024 00:14:36 (Found 4 errors + 2602 warnings) Compiling jalview/test/jalview/ext/htsjdk build 15-Nov-2024 00:14:36 (Found 4 errors + 2603 warnings) Compiling jalview/test/jalview/ext/jmol build 15-Nov-2024 00:14:36 (Found 4 errors + 2604 warnings) Compiling jalview/test/jalview/ext/jmol build 15-Nov-2024 00:14:36 (Found 4 errors + 2604 warnings) Compiling jalview/test/jalview/ext/paradise build 15-Nov-2024 00:14:36 (Found 4 errors + 2604 warnings) Compiling jalview/test/jalview/ext/pymol build 15-Nov-2024 00:14:36 (Found 4 errors + 2604 warnings) Compiling jalview/test/jalview/ext/rbvi/chimera build 15-Nov-2024 00:14:36 (Found 4 errors + 2604 warnings) Compiling jalview/test/jalview/ext/so build 15-Nov-2024 00:14:36 (Found 4 errors + 2604 warnings) Compiling jalview/test/jalview/fts/core build 15-Nov-2024 00:14:36 (Found 4 errors + 2605 warnings) Compiling jalview/test/jalview/fts/service/pdb build 15-Nov-2024 00:14:36 (Found 4 errors + 2606 warnings) Compiling jalview/test/jalview/fts/service/pdb build 15-Nov-2024 00:14:36 (Found 4 errors + 2613 warnings) Compiling jalview/test/jalview/fts/threedbeacons build 15-Nov-2024 00:14:36 (Found 4 errors + 2618 warnings) Compiling jalview/test/jalview/fts/threedbeacons build 15-Nov-2024 00:14:36 (Found 4 errors + 2618 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2620 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2622 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2623 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2643 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2668 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2669 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2672 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2673 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2675 warnings) Compiling jalview/test/jalview/gui build 15-Nov-2024 00:14:36 (Found 4 errors + 2681 warnings) Compiling jalview/test/jalview/gui/structurechooser build 15-Nov-2024 00:14:36 (Found 4 errors + 2682 warnings) Compiling jalview/test/jalview/io build 15-Nov-2024 00:14:36 (Found 4 errors + 2683 warnings) Compiling jalview/test/jalview/io build 15-Nov-2024 00:14:36 (Found 4 errors + 2687 warnings) Compiling jalview/test/jalview/io build 15-Nov-2024 00:14:36 (Found 4 errors + 2691 warnings) Compiling jalview/test/jalview/io build 15-Nov-2024 00:14:36 (Found 4 errors + 2693 warnings) Compiling jalview/test/jalview/io build 15-Nov-2024 00:14:36 (Found 4 errors + 2694 warnings) Compiling jalview/test/jalview/io build 15-Nov-2024 00:14:36 (Found 4 errors + 2700 warnings) Compiling jalview/test/jalview/io build 15-Nov-2024 00:14:37 (Found 4 errors + 2702 warnings) Compiling jalview/test/jalview/io build 15-Nov-2024 00:14:37 (Found 4 errors + 2702 warnings) Compiling jalview/test/jalview/io/cache build 15-Nov-2024 00:14:37 (Found 4 errors + 2702 warnings) Compiling jalview/test/jalview/io/gff build 15-Nov-2024 00:14:37 (Found 4 errors + 2703 warnings) Compiling jalview/test/jalview/io/gff build 15-Nov-2024 00:14:37 (Found 4 errors + 2712 warnings) Compiling jalview/test/jalview/io/vcf build 15-Nov-2024 00:14:37 (Found 4 errors + 2712 warnings) Compiling jalview/test/jalview/math build 15-Nov-2024 00:14:37 (Found 4 errors + 2716 warnings) Compiling jalview/test/jalview/project build 15-Nov-2024 00:14:37 (Found 4 errors + 2717 warnings) Compiling jalview/test/jalview/renderer build 15-Nov-2024 00:14:37 (Found 4 errors + 2724 warnings) Compiling jalview/test/jalview/renderer build 15-Nov-2024 00:14:37 (Found 4 errors + 2724 warnings) Compiling jalview/test/jalview/renderer/seqfeatures build 15-Nov-2024 00:14:37 (Found 4 errors + 2724 warnings) Compiling jalview/test/jalview/schemes build 15-Nov-2024 00:14:37 (Found 4 errors + 2724 warnings) Compiling jalview/test/jalview/structure build 15-Nov-2024 00:14:37 (Found 4 errors + 2726 warnings) Compiling jalview/test/jalview/structure build 15-Nov-2024 00:14:37 (Found 4 errors + 2727 warnings) Compiling jalview/test/jalview/structure build 15-Nov-2024 00:14:37 (Found 4 errors + 2728 warnings) Compiling jalview/test/jalview/structure build 15-Nov-2024 00:14:37 (Found 4 errors + 2731 warnings) Compiling jalview/test/jalview/structure build 15-Nov-2024 00:14:37 (Found 4 errors + 2731 warnings) Compiling jalview/test/jalview/structures/models build 15-Nov-2024 00:14:37 (Found 4 errors + 2732 warnings) Compiling jalview/test/jalview/urls build 15-Nov-2024 00:14:37 (Found 4 errors + 2737 warnings) Compiling jalview/test/jalview/urls build 15-Nov-2024 00:14:37 (Found 4 errors + 2742 warnings) Compiling jalview/test/jalview/urls build 15-Nov-2024 00:14:37 (Found 4 errors + 2742 warnings) Compiling jalview/test/jalview/util build 15-Nov-2024 00:14:37 (Found 4 errors + 2749 warnings) Compiling jalview/test/jalview/util build 15-Nov-2024 00:14:37 (Found 4 errors + 2750 warnings) Compiling jalview/test/jalview/util build 15-Nov-2024 00:14:37 (Found 4 errors + 2754 warnings) Compiling jalview/test/jalview/util build 15-Nov-2024 00:14:37 (Found 4 errors + 2755 warnings) Compiling jalview/test/jalview/util build 15-Nov-2024 00:14:37 (Found 4 errors + 2760 warnings) Compiling jalview/test/jalview/util build 15-Nov-2024 00:14:37 (Found 4 errors + 2760 warnings) Compiling jalview/test/jalview/util/dialogrunner build 15-Nov-2024 00:14:37 (Found 4 errors + 2760 warnings) Compiling jalview/test/jalview/util/imagemaker build 15-Nov-2024 00:14:37 (Found 4 errors + 2760 warnings) Compiling jalview/test/jalview/util/matcher build 15-Nov-2024 00:14:37 (Found 4 errors + 2763 warnings) Compiling jalview/test/jalview/util/matcher build 15-Nov-2024 00:14:37 (Found 4 errors + 2763 warnings) Compiling jalview/test/jalview/viewmodel build 15-Nov-2024 00:14:37 (Found 4 errors + 2764 warnings) Compiling jalview/test/jalview/viewmodel/styles build 15-Nov-2024 00:14:37 (Found 4 errors + 2764 warnings) Compiling jalview/test/jalview/workers build 15-Nov-2024 00:14:37 (Found 4 errors + 2764 warnings) Compiling jalview/test/jalview/ws build 15-Nov-2024 00:14:37 (Found 4 errors + 2766 warnings) Compiling jalview/test/jalview/ws build 15-Nov-2024 00:14:37 (Found 4 errors + 2769 warnings) Compiling jalview/test/jalview/ws/dbsources build 15-Nov-2024 00:14:37 (Found 4 errors + 2770 warnings) Compiling jalview/test/jalview/ws/dbsources build 15-Nov-2024 00:14:37 (Found 4 errors + 2770 warnings) Compiling jalview/test/jalview/ws/ebi build 15-Nov-2024 00:14:37 (Found 4 errors + 2777 warnings) Compiling jalview/test/jalview/ws/gui build 15-Nov-2024 00:14:37 (Found 4 errors + 2777 warnings) Compiling jalview/test/jalview/ws/jabaws build 15-Nov-2024 00:14:37 (Found 4 errors + 2778 warnings) Compiling jalview/test/jalview/ws/jabaws build 15-Nov-2024 00:14:37 (Found 4 errors + 2779 warnings) Compiling jalview/test/jalview/ws/jabaws build 15-Nov-2024 00:14:37 (Found 4 errors + 2783 warnings) Compiling jalview/test/jalview/ws/jabaws build 15-Nov-2024 00:14:37 (Found 4 errors + 2798 warnings) Compiling jalview/test/jalview/ws/jws2 build 15-Nov-2024 00:14:37 (Found 4 errors + 2798 warnings) Compiling jalview/test/jalview/ws/rest build 15-Nov-2024 00:14:37 (Found 4 errors + 2799 warnings) Compiling jalview/test/jalview/ws/rest build 15-Nov-2024 00:14:37 (Found 4 errors + 2799 warnings) Compiling jalview/test/jalview/ws/seqfetcher build 15-Nov-2024 00:14:37 (Found 4 errors + 2800 warnings) Compiling jalview/test/jalview/ws/sifts build 15-Nov-2024 00:14:37 (Found 4 errors + 2802 warnings) Compiling jalview/test/jalview/ws/utils build 15-Nov-2024 00:14:37 (Found 4 errors + 2818 warnings) Compiling jalview/test/junit/extensions build 15-Nov-2024 00:14:37 (Found 4 errors + 2820 warnings) Compiling jalview/test/junit/extensions build 15-Nov-2024 00:14:37 (Found 4 errors + 2820 warnings) Compiling jalview/test/mc_view build 15-Nov-2024 00:14:37 (Found 4 errors + 2821 warnings) Compiling jalview/test/mc_view build 15-Nov-2024 00:14:37 J2S using configuration file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/.j2s build 15-Nov-2024 00:14:37 j2s.config.altfileproperty = org.jalview.jalviewjsj2sfilename build 15-Nov-2024 00:14:37 J2S System.getProperty("org.jalview.jalviewjsj2sfilename") = ./build/jalviewjs/config/j2s build 15-Nov-2024 00:14:37 J2S using configuration file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/./build/jalviewjs/config/j2s build 15-Nov-2024 00:14:37 j2s.compiler.status = enable build 15-Nov-2024 00:14:37 j2s.compiler.java.version = 8 build 15-Nov-2024 00:14:37 J2S compiler version set to 8 build 15-Nov-2024 00:14:37 j2s.break.on.error = false build 15-Nov-2024 00:14:37 j2s.exact.long = true build 15-Nov-2024 00:14:37 j2s.async.thread = false build 15-Nov-2024 00:14:37 j2s.compiler.mode = nodebug build 15-Nov-2024 00:14:37 j2s.site.directory = ./build/jalviewjs/tmp/site_js build 15-Nov-2024 00:14:37 J2S writing to /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/./build/jalviewjs/tmp/site_js/swingjs/j2s build 15-Nov-2024 00:14:37 j2s.log.methods.declared = build 15-Nov-2024 00:14:37 j2s.log.methods.called = build 15-Nov-2024 00:14:37 j2s.excluded.paths = test;testng;util build 15-Nov-2024 00:14:37 j2s.compiler.read.annotations = true build 15-Nov-2024 00:14:37 j2s.compiler.ignored.annotations = CallerSensitive;ConstructorProperties;Deprecated;Override;SafeVarargs;SuppressWarnings;FunctionalInterface;Documented;Inherited;Native;Repeatable;Retention; build 15-Nov-2024 00:14:37 j2s.testing = false build 15-Nov-2024 00:14:37 j2s.compiler.nonqualified.packages = build 15-Nov-2024 00:14:37 j2s.compiler.nonqualified.classes = build 15-Nov-2024 00:14:37 j2s.class.replacements = build 15-Nov-2024 00:14:37 j2s.template.html = utils/jalviewjs/template.html build 15-Nov-2024 00:14:37 J2S using HTML template /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/utils/jalviewjs/template.html build 15-Nov-2024 00:14:37 J2S building JavaScript jalview /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 Fri Nov 15 00:14:37 GMT 2024 build 15-Nov-2024 00:14:37 J2S building JavaScript for 1103 files build 15-Nov-2024 00:14:37 J2S transpiling (1/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/github/reinert/jjschema/Attributes.java build 15-Nov-2024 00:14:38 j2s copying resources from /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com to /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/./build/jalviewjs/tmp/site_js/swingjs/j2s/com build 15-Nov-2024 00:14:38 J2S transpiling (2/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/AmpersandRule.java build 15-Nov-2024 00:14:38 J2S transpiling (3/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Any.java build 15-Nov-2024 00:14:38 J2S transpiling (4/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/BackG.java build 15-Nov-2024 00:14:38 J2S transpiling (5/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/BackMatch.java build 15-Nov-2024 00:14:38 J2S transpiling (6/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/BackRefRule.java build 15-Nov-2024 00:14:38 J2S transpiling (7/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Backup.java build 15-Nov-2024 00:14:38 J2S transpiling (8/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/BasicStringBufferLike.java build 15-Nov-2024 00:14:38 J2S transpiling (9/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Bits.java build 15-Nov-2024 00:14:38 J2S transpiling (10/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Boundary.java build 15-Nov-2024 00:14:38 J2S transpiling (11/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Bracket.java build 15-Nov-2024 00:14:38 J2S transpiling (12/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/CaseMgr.java build 15-Nov-2024 00:14:38 J2S transpiling (13/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/ChangeRule.java build 15-Nov-2024 00:14:38 J2S transpiling (14/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/CodeRule.java build 15-Nov-2024 00:14:38 J2S transpiling (15/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Ctrl.java build 15-Nov-2024 00:14:38 J2S transpiling (16/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Custom.java build 15-Nov-2024 00:14:38 J2S transpiling (17/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/CustomEndpoint.java build 15-Nov-2024 00:14:38 J2S transpiling (18/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/DirFileRegex.java build 15-Nov-2024 00:14:38 J2S transpiling (19/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/DotMulti.java build 15-Nov-2024 00:14:38 J2S transpiling (20/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/End.java build 15-Nov-2024 00:14:38 J2S transpiling (21/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/FastBracket.java build 15-Nov-2024 00:14:38 J2S transpiling (22/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/FastMulti.java build 15-Nov-2024 00:14:38 J2S transpiling (23/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/FileRegex.java build 15-Nov-2024 00:14:39 J2S transpiling (24/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Group.java build 15-Nov-2024 00:14:39 J2S transpiling (25/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/LeftRule.java build 15-Nov-2024 00:14:39 J2S transpiling (26/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Multi.java build 15-Nov-2024 00:14:39 J2S transpiling (27/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/MultiMin.java build 15-Nov-2024 00:14:39 J2S transpiling (28/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Multi_stage2.java build 15-Nov-2024 00:14:39 J2S transpiling (29/1103) 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/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/OrMark.java build 15-Nov-2024 00:14:39 J2S transpiling (36/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/PartialBuffer.java build 15-Nov-2024 00:14:39 J2S transpiling (37/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Pattern.java build 15-Nov-2024 00:14:39 J2S transpiling (38/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/PatternSub.java build 15-Nov-2024 00:14:39 J2S transpiling (39/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/PopRule.java build 15-Nov-2024 00:14:39 J2S transpiling (40/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Prop.java build 15-Nov-2024 00:14:39 J2S transpiling (41/1103) 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build 15-Nov-2024 00:14:39 J2S transpiling (48/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/RegSyntaxError.java build 15-Nov-2024 00:14:39 J2S transpiling (49/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Regex.java build 15-Nov-2024 00:14:39 J2S transpiling (50/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/RegexReader.java build 15-Nov-2024 00:14:39 J2S transpiling (51/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/RegexTokenizer.java build 15-Nov-2024 00:14:39 J2S transpiling (52/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/RegexWriter.java build 15-Nov-2024 00:14:39 >>>main found for com.stevesoft.pat.RegexWriter build 15-Nov-2024 00:14:39 J2S creating /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/./build/jalviewjs/tmp/site_js/com_stevesoft_pat_RegexWriter.html build 15-Nov-2024 00:14:39 J2S transpiling (53/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/ReplaceRule.java build 15-Nov-2024 00:14:39 J2S transpiling (54/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Replacer.java build 15-Nov-2024 00:14:39 J2S transpiling (55/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/RightRule.java build 15-Nov-2024 00:14:39 J2S transpiling (56/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Rthings.java build 15-Nov-2024 00:14:39 J2S transpiling (57/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/RuleHolder.java build 15-Nov-2024 00:14:39 J2S transpiling (58/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Skip.java build 15-Nov-2024 00:14:39 J2S transpiling (59/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Skip2.java build 15-Nov-2024 00:14:39 J2S transpiling (60/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/SkipBMH.java build 15-Nov-2024 00:14:39 J2S transpiling (61/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Skipped.java build 15-Nov-2024 00:14:39 J2S transpiling (62/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/SpecialRule.java build 15-Nov-2024 00:14:39 J2S transpiling (63/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Start.java build 15-Nov-2024 00:14:39 J2S transpiling (64/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/StrPos.java build 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/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/UniValidator.java build 15-Nov-2024 00:14:39 J2S transpiling (72/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/Validator.java build 15-Nov-2024 00:14:39 J2S transpiling (73/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/WantMoreTextReplaceRule.java build 15-Nov-2024 00:14:40 J2S transpiling (74/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/lookAhead.java build 15-Nov-2024 00:14:40 J2S transpiling (75/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/oneChar.java build 15-Nov-2024 00:14:40 J2S transpiling (76/1103) /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/src/com/stevesoft/pat/parsePerl.java build 15-Nov-2024 00:14:40 J2S transpiling (77/1103) 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/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/PDBSequenceFetcherTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/SequenceFetcherTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/EBIAlphaFoldTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/EmblXmlSourceTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/PfamFullTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/PfamSeedTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/RemoteFormatTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/RfamFullTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/RfamSeedTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/UniprotTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/dbsources/XfamFetcherTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/ebi/EBIFetchClientTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/gui/Jws2ParamView.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/jabaws/DisorderAnnotExportImport.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/jabaws/JalviewJabawsTestUtils.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/jabaws/MinJabawsClientTests.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/jabaws/RNAStructExportImport.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/jws2/ParameterUtilsTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/rest/RestClientTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/rest/ShmmrRSBSService.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/seqfetcher/DbRefFetcherTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/sifts/SiftsClientTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/jalview/ws/utils/UrlDownloadClientTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/junit/extensions/PA.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/junit/extensions/PrivilegedAccessor.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/mc_view/AtomTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/mc_view/BondTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/mc_view/PDBChainTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/mc_view/PDBfileTest.java build 15-Nov-2024 00:15:08 J2S excluded /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/test/mc_view/ResidueTest.java build 15-Nov-2024 00:15:08 J2S processed 1103 .java files, created 1134 .js files and 7 .html files, copied 6 resources build 15-Nov-2024 00:15:08 J2S buildFinished 1103 files transpiled for /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 build 15-Nov-2024 00:15:08 J2S buildFinished nerror = 0 Fri Nov 15 00:15:08 GMT 2024 build 15-Nov-2024 00:15:08 (Found 4 errors + 2821 warnings) Build done build 15-Nov-2024 00:15:08 Invoking 'Gradle Project Builder' on '/jalview'. build 15-Nov-2024 00:15:09 :jalviewjsTranspile (Thread[Execution worker for ':',5,main]) completed. Took 53.406 secs. build 15-Nov-2024 00:15:09 :jalviewjsCopyTransferSiteJs (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:09 build 15-Nov-2024 00:15:09 > Task :jalviewjsCopyTransferSiteJs build 15-Nov-2024 00:15:09 Caching disabled for task ':jalviewjsCopyTransferSiteJs' because: build 15-Nov-2024 00:15:09 Build cache is disabled build 15-Nov-2024 00:15:09 Task ':jalviewjsCopyTransferSiteJs' is not up-to-date because: build 15-Nov-2024 00:15:09 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site has been removed. build 15-Nov-2024 00:15:09 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/com_stevesoft_pat_RegexWriter.html has been removed. build 15-Nov-2024 00:15:09 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_GetdownLauncherUpdate.html has been removed. build 15-Nov-2024 00:15:09 :jalviewjsCopyTransferSiteJs (Thread[Execution worker for ':',5,main]) completed. Took 0.248 secs. build 15-Nov-2024 00:15:09 :jalviewjsTransferUnzipLib (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:10 build 15-Nov-2024 00:15:10 > Task :jalviewjsTransferUnzipLib build 15-Nov-2024 00:15:10 Caching disabled for task ':jalviewjsTransferUnzipLib' because: build 15-Nov-2024 00:15:10 Build cache is disabled build 15-Nov-2024 00:15:10 Task ':jalviewjsTransferUnzipLib' is not up-to-date because: build 15-Nov-2024 00:15:10 One or more additional actions for task ':jalviewjsTransferUnzipLib' have changed. build 15-Nov-2024 00:15:10 :jalviewjsTransferUnzipLib (Thread[Execution worker for ':',5,main]) completed. Took 0.741 secs. build 15-Nov-2024 00:15:10 :jalviewjsTransferUnzipSwingJs (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:11 build 15-Nov-2024 00:15:11 > Task :jalviewjsTransferUnzipSwingJs build 15-Nov-2024 00:15:11 Caching disabled for task ':jalviewjsTransferUnzipSwingJs' because: build 15-Nov-2024 00:15:11 Build cache is disabled build 15-Nov-2024 00:15:11 Task ':jalviewjsTransferUnzipSwingJs' is not up-to-date because: build 15-Nov-2024 00:15:11 One or more additional actions for task ':jalviewjsTransferUnzipSwingJs' have changed. build 15-Nov-2024 00:15:11 :jalviewjsTransferUnzipSwingJs (Thread[Execution worker for ':',5,main]) completed. Took 1.227 secs. build 15-Nov-2024 00:15:11 :jalviewjsTransferUnzipAllLibs (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:11 build 15-Nov-2024 00:15:11 > Task :jalviewjsTransferUnzipAllLibs build 15-Nov-2024 00:15:11 Skipping task ':jalviewjsTransferUnzipAllLibs' as it has no actions. build 15-Nov-2024 00:15:11 :jalviewjsTransferUnzipAllLibs (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:15:11 :jalviewjsSyncAllLibs (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:13 build 15-Nov-2024 00:15:13 > Task :jalviewjsSyncAllLibs build 15-Nov-2024 00:15:13 Caching disabled for task ':jalviewjsSyncAllLibs' because: build 15-Nov-2024 00:15:13 Build cache is disabled build 15-Nov-2024 00:15:13 Task ':jalviewjsSyncAllLibs' is not up-to-date because: build 15-Nov-2024 00:15:13 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/j2s/org/json/CDL.js has changed. build 15-Nov-2024 00:15:13 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/j2s/org/json/Cookie.js has changed. build 15-Nov-2024 00:15:13 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/j2s/org/json/CookieList.js has changed. build 15-Nov-2024 00:15:13 :jalviewjsSyncAllLibs (Thread[Execution worker for ':',5,main]) completed. Took 1.277 secs. build 15-Nov-2024 00:15:13 :copyResources (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:13 build 15-Nov-2024 00:15:13 > Task :copyResources UP-TO-DATE build 15-Nov-2024 00:15:13 Caching disabled for task ':copyResources' because: build 15-Nov-2024 00:15:13 Build cache is disabled build 15-Nov-2024 00:15:13 Skipping task ':copyResources' as it is up-to-date. build 15-Nov-2024 00:15:13 :copyResources (Thread[Execution worker for ':',5,main]) completed. Took 0.005 secs. build 15-Nov-2024 00:15:13 :createBuildProperties (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:13 build 15-Nov-2024 00:15:13 > Task :createBuildProperties build 15-Nov-2024 00:15:13 Caching disabled for task ':createBuildProperties' because: build 15-Nov-2024 00:15:13 Build cache is disabled build 15-Nov-2024 00:15:13 Task ':createBuildProperties' is not up-to-date because: build 15-Nov-2024 00:15:13 Value of input property 'comment' has changed for task ':createBuildProperties' build 15-Nov-2024 00:15:13 Value of input property 'properties' has changed for task ':createBuildProperties' build 15-Nov-2024 00:15:13 :createBuildProperties (Thread[Execution worker for ':',5,main]) completed. Took 0.001 secs. build 15-Nov-2024 00:15:13 :jalviewjsSyncBuildProperties (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:13 build 15-Nov-2024 00:15:13 > Task :jalviewjsSyncBuildProperties build 15-Nov-2024 00:15:13 Caching disabled for task ':jalviewjsSyncBuildProperties' because: build 15-Nov-2024 00:15:13 Build cache is disabled build 15-Nov-2024 00:15:13 Task ':jalviewjsSyncBuildProperties' is not up-to-date because: build 15-Nov-2024 00:15:13 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/j2s/.build_properties has been removed. build 15-Nov-2024 00:15:13 :jalviewjsSyncBuildProperties (Thread[Execution worker for ':',5,main]) completed. Took 0.104 secs. build 15-Nov-2024 00:15:13 :jalviewjsBuildAllCores (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:15 build 15-Nov-2024 00:15:15 > Task :jalviewjsBuildAllCores build 15-Nov-2024 00:15:15 Execution optimizations have been disabled for task ':jalviewjsBuildAllCores' to ensure correctness due to the following reasons: build 15-Nov-2024 00:15:15 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/tmp/site_lib/swingjs/j2s'. Reason: Task ':jalviewjsBuildAllCores' uses this output of task ':jalviewjsTransferUnzipLib' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:15:15 Invalidating VFS because task ':jalviewjsBuildAllCores' failed validation build 15-Nov-2024 00:15:15 Caching disabled for task ':jalviewjsBuildAllCores' because: build 15-Nov-2024 00:15:15 Build cache is disabled build 15-Nov-2024 00:15:15 Task ':jalviewjsBuildAllCores' is not up-to-date because: build 15-Nov-2024 00:15:15 Incremental execution has been disabled to ensure correctness. Please consult deprecation warnings for more details. build 15-Nov-2024 00:15:15 Creating core for jalview... build 15-Nov-2024 00:15:15 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.js build 15-Nov-2024 00:15:15 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.z.js build 15-Nov-2024 00:15:15 build 15-Nov-2024 00:15:15 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.z.js' build 15-Nov-2024 00:15:15 build 15-Nov-2024 00:15:15 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejalview.z.js build 15-Nov-2024 00:15:15 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 15-Nov-2024 00:15:23 -- build 15-Nov-2024 00:15:23 Creating core for jvexamplefile... build 15-Nov-2024 00:15:23 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.js build 15-Nov-2024 00:15:23 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.z.js build 15-Nov-2024 00:15:23 build 15-Nov-2024 00:15:23 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.z.js' build 15-Nov-2024 00:15:23 build 15-Nov-2024 00:15:23 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/corejvexamplefile.z.js build 15-Nov-2024 00:15:23 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 15-Nov-2024 00:15:25 -- build 15-Nov-2024 00:15:25 Creating core for _jalview... build 15-Nov-2024 00:15:25 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_jalview.js build 15-Nov-2024 00:15:25 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_jalview.z.js build 15-Nov-2024 00:15:25 build 15-Nov-2024 00:15:25 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_jalview.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_jalview.z.js' build 15-Nov-2024 00:15:25 build 15-Nov-2024 00:15:25 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_jalview.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_jalview.z.js build 15-Nov-2024 00:15:25 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 15-Nov-2024 00:15:26 -- build 15-Nov-2024 00:15:26 Creating core for _stevesoft... build 15-Nov-2024 00:15:26 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.js build 15-Nov-2024 00:15:26 Generating ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.z.js build 15-Nov-2024 00:15:26 build 15-Nov-2024 00:15:26 Running '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.z.js' build 15-Nov-2024 00:15:26 build 15-Nov-2024 00:15:26 Starting process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 Command: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java -Xmx2g -Dfile.encoding=UTF-8 -Duser.country=GB -Duser.language=en -Duser.variant -cp /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/tools/closure_compiler.jar com.google.javascript.jscomp.CommandLineRunner --compilation_level SIMPLE_OPTIMIZATIONS --warning_level QUIET --charset UTF-8 --js ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.js --js_output_file ./build/jalviewjs/tmp/site_core/swingjs/j2s/core/core_stevesoft.z.js build 15-Nov-2024 00:15:26 Successfully started process 'command '/srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/bin/java'' build 15-Nov-2024 00:15:29 -- build 15-Nov-2024 00:15:29 :jalviewjsBuildAllCores (Thread[Execution worker for ':',5,main]) completed. Took 16.257 secs. build 15-Nov-2024 00:15:29 :jalviewjsPublishCoreTemplates (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:29 build 15-Nov-2024 00:15:29 > Task :jalviewjsPublishCoreTemplates build 15-Nov-2024 00:15:29 Caching disabled for task ':jalviewjsPublishCoreTemplates' because: build 15-Nov-2024 00:15:29 Build cache is disabled build 15-Nov-2024 00:15:29 Task ':jalviewjsPublishCoreTemplates' is not up-to-date because: build 15-Nov-2024 00:15:29 One or more additional actions for task ':jalviewjsPublishCoreTemplates' have changed. build 15-Nov-2024 00:15:29 :jalviewjsPublishCoreTemplates (Thread[Execution worker for ':',5,main]) completed. Took 0.031 secs. build 15-Nov-2024 00:15:29 :jalviewjsSyncCore (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:29 build 15-Nov-2024 00:15:29 > Task :jalviewjsSyncCore build 15-Nov-2024 00:15:29 Caching disabled for task ':jalviewjsSyncCore' because: build 15-Nov-2024 00:15:29 Build cache is disabled build 15-Nov-2024 00:15:29 Task ':jalviewjsSyncCore' is not up-to-date because: build 15-Nov-2024 00:15:29 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/JalviewJS__jalview.html has been removed. build 15-Nov-2024 00:15:29 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/JalviewJS__stevesoft.html has been removed. build 15-Nov-2024 00:15:29 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/JalviewJS_jalview.html has been removed. build 15-Nov-2024 00:15:29 :jalviewjsSyncCore (Thread[Execution worker for ':',5,main]) completed. Took 0.177 secs. build 15-Nov-2024 00:15:29 :copyChannelResources (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:29 build 15-Nov-2024 00:15:29 > Task :copyChannelResources build 15-Nov-2024 00:15:29 Execution optimizations have been disabled for task ':copyChannelResources' to ensure correctness due to the following reasons: build 15-Nov-2024 00:15:29 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':createBuildProperties' uses this output of task ':copyChannelResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:15:29 - Gradle detected a problem with the following location: '/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/resources/resources_build'. Reason: Task ':jalviewjsSyncBuildProperties' uses this output of task ':copyChannelResources' without declaring an explicit or implicit dependency. This can lead to incorrect results being produced, depending on what order the tasks are executed. Please refer to https://docs.gradle.org/7.4.2/userguide/validation_problems.html#implicit_dependency for more details about this problem. build 15-Nov-2024 00:15:29 Invalidating VFS because task ':copyChannelResources' failed validation build 15-Nov-2024 00:15:29 Caching disabled for task ':copyChannelResources' because: build 15-Nov-2024 00:15:29 Build cache is disabled build 15-Nov-2024 00:15:29 Task ':copyChannelResources' is not up-to-date because: build 15-Nov-2024 00:15:29 Incremental execution has been disabled to ensure correctness. Please consult deprecation warnings for more details. build 15-Nov-2024 00:15:29 :copyChannelResources (Thread[Execution worker for ':',5,main]) completed. Took 0.244 secs. build 15-Nov-2024 00:15:29 :buildResources (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:29 build 15-Nov-2024 00:15:29 > Task :buildResources build 15-Nov-2024 00:15:29 Skipping task ':buildResources' as it has no actions. build 15-Nov-2024 00:15:29 :buildResources (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:15:29 :jalviewjsSyncResources (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:30 build 15-Nov-2024 00:15:30 > Task :jalviewjsSyncResources build 15-Nov-2024 00:15:30 Caching disabled for task ':jalviewjsSyncResources' because: build 15-Nov-2024 00:15:30 Build cache is disabled build 15-Nov-2024 00:15:30 Task ':jalviewjsSyncResources' is not up-to-date because: build 15-Nov-2024 00:15:30 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/j2s/.build_properties has changed. build 15-Nov-2024 00:15:30 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/j2s/AmbiguityCodes.dat has been removed. build 15-Nov-2024 00:15:30 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/j2s/authors.props has been removed. build 15-Nov-2024 00:15:30 :jalviewjsSyncResources (Thread[Execution worker for ':',5,main]) completed. Took 0.165 secs. build 15-Nov-2024 00:15:30 :jalviewjsSyncSiteResources (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:31 build 15-Nov-2024 00:15:31 > Task :jalviewjsSyncSiteResources build 15-Nov-2024 00:15:31 Caching disabled for task ':jalviewjsSyncSiteResources' because: build 15-Nov-2024 00:15:31 Build cache is disabled build 15-Nov-2024 00:15:31 Task ':jalviewjsSyncSiteResources' is not up-to-date because: build 15-Nov-2024 00:15:31 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_JalviewJS2.html has changed. build 15-Nov-2024 00:15:31 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/applets-nocore.html has been removed. build 15-Nov-2024 00:15:31 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/applets.html has been removed. build 15-Nov-2024 00:15:31 :jalviewjsSyncSiteResources (Thread[Execution worker for ':',5,main]) completed. Took 1.141 secs. build 15-Nov-2024 00:15:31 :jalviewjsPrepareSite (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:31 build 15-Nov-2024 00:15:31 > Task :jalviewjsPrepareSite build 15-Nov-2024 00:15:31 Skipping task ':jalviewjsPrepareSite' as it has no actions. build 15-Nov-2024 00:15:31 :jalviewjsPrepareSite (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:15:31 :jalviewjsBuildSite (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:31 build 15-Nov-2024 00:15:31 > Task :jalviewjsBuildSite build 15-Nov-2024 00:15:31 Skipping task ':jalviewjsBuildSite' as it has no actions. build 15-Nov-2024 00:15:31 :jalviewjsBuildSite (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:15:31 :cleanJalviewjsChromiumUserDir (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:31 build 15-Nov-2024 00:15:31 > Task :cleanJalviewjsChromiumUserDir build 15-Nov-2024 00:15:31 Caching disabled for task ':cleanJalviewjsChromiumUserDir' because: build 15-Nov-2024 00:15:31 Build cache is disabled build 15-Nov-2024 00:15:31 Task ':cleanJalviewjsChromiumUserDir' is not up-to-date because: build 15-Nov-2024 00:15:31 One or more additional actions for task ':cleanJalviewjsChromiumUserDir' have changed. build 15-Nov-2024 00:15:31 :cleanJalviewjsChromiumUserDir (Thread[Execution worker for ':',5,main]) completed. Took 0.001 secs. build 15-Nov-2024 00:15:31 :jalviewjsChromiumProfile (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:31 build 15-Nov-2024 00:15:31 > Task :jalviewjsChromiumProfile build 15-Nov-2024 00:15:31 Caching disabled for task ':jalviewjsChromiumProfile' because: build 15-Nov-2024 00:15:31 Build cache is disabled build 15-Nov-2024 00:15:31 Task ':jalviewjsChromiumProfile' is not up-to-date because: build 15-Nov-2024 00:15:31 One or more additional actions for task ':jalviewjsChromiumProfile' have changed. build 15-Nov-2024 00:15:31 :jalviewjsChromiumProfile (Thread[Execution worker for ':',5,main]) completed. Took 0.001 secs. build 15-Nov-2024 00:15:31 :jalviewjsCopyStderrLaunchFile (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:31 build 15-Nov-2024 00:15:31 > Task :jalviewjsCopyStderrLaunchFile build 15-Nov-2024 00:15:31 Caching disabled for task ':jalviewjsCopyStderrLaunchFile' because: build 15-Nov-2024 00:15:31 Build cache is disabled build 15-Nov-2024 00:15:31 Task ':jalviewjsCopyStderrLaunchFile' is not up-to-date because: build 15-Nov-2024 00:15:31 Output property '$1' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html has been removed. build 15-Nov-2024 00:15:31 Output property 'destinationDir' file /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html has been removed. build 15-Nov-2024 00:15:31 :jalviewjsCopyStderrLaunchFile (Thread[Execution worker for ':',5,main]) completed. Took 0.075 secs. build 15-Nov-2024 00:15:31 :jalviewjsLaunchTest (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:31 COMMAND: '/home/bamboo/buildtools/chromium/chrome --no-sandbox --headless=new --disable-gpu --timeout=40000 --virtual-time-budget=40000 --user-data-dir=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/chromium --profile-directory=BUILD --allow-file-access-from-files --enable-logging=stderr file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html' build 15-Nov-2024 00:15:31 Starting process 'command '/home/bamboo/buildtools/chromium/chrome''. Working directory: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1 Command: /home/bamboo/buildtools/chromium/chrome --no-sandbox --headless=new --disable-gpu --timeout=40000 --virtual-time-budget=40000 --user-data-dir=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/chromium --profile-directory=BUILD --allow-file-access-from-files --enable-logging=stderr file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html build 15-Nov-2024 00:15:31 Successfully started process 'command '/home/bamboo/buildtools/chromium/chrome'' error 15-Nov-2024 00:15:32 [20597:20597:1115/001532.461745:WARNING:chrome_main_delegate.cc(593)] This is Thorium version: 114.0.5735.134 (not a warning) error 15-Nov-2024 00:15:32 [20597:20597:1115/001532.908038:WARNING:chrome_browser_cloud_management_controller.cc(87)] Could not create policy manager as CBCM is not enabled. build 15-Nov-2024 00:15:33 build 15-Nov-2024 00:15:33 > Task :jalviewjsLaunchTest build 15-Nov-2024 00:15:33 Caching disabled for task ':jalviewjsLaunchTest' because: build 15-Nov-2024 00:15:33 Build cache is disabled build 15-Nov-2024 00:15:33 Task ':jalviewjsLaunchTest' is not up-to-date because: build 15-Nov-2024 00:15:33 Task has not declared any outputs despite executing actions. error 15-Nov-2024 00:15:33 [20597:20614:1115/001533.901543:ERROR:bus.cc(399)] Failed to connect to the bus: Could not parse server address: Unknown address type (examples of valid types are "tcp" and on UNIX "unix") error 15-Nov-2024 00:15:33 [20597:20614:1115/001533.906290:ERROR:bus.cc(399)] Failed to connect to the bus: Could not parse server address: Unknown address type (examples of valid types are "tcp" and on UNIX "unix") build 15-Nov-2024 00:15:33 error 15-Nov-2024 00:15:33 [20597:20614:1115/001533.906309:ERROR:bus.cc(399)] Failed to connect to the bus: Could not parse server address: Unknown address type (examples of valid types are "tcp" and on UNIX "unix") error 15-Nov-2024 00:15:33 [20597:20614:1115/001533.906321:ERROR:bus.cc(399)] Failed to connect to the bus: Could not parse server address: Unknown address type (examples of valid types are "tcp" and on UNIX "unix") error 15-Nov-2024 00:15:34 [20597:20597:1115/001533.996604:ERROR:chrome_browser_cloud_management_controller.cc(162)] Cloud management controller initialization aborted as CBCM is not enabled. error 15-Nov-2024 00:15:34 [20597:20614:1115/001534.154942:ERROR:bus.cc(399)] Failed to connect to the bus: Could not parse server address: Unknown address type (examples of valid types are "tcp" and on UNIX "unix") error 15-Nov-2024 00:15:34 [20597:20614:1115/001534.154972:ERROR:bus.cc(399)] Failed to connect to the bus: Could not parse server address: Unknown address type (examples of valid types are "tcp" and on UNIX "unix") error 15-Nov-2024 00:15:34 [20626:20626:1115/001534.377929:ERROR:vaapi_wrapper.cc(3273)] Failed to initialize VAAPI libs error 15-Nov-2024 00:15:34 [20626:20626:1115/001534.388400:WARNING:sandbox_linux.cc(393)] InitializeSandbox() called with multiple threads in process gpu-process. error 15-Nov-2024 00:15:34 [20597:20611:1115/001534.398838:WARNING:external_pref_loader.cc(294)] You are using an old-style extension deployment method (external_extensions.json), which will soon be deprecated. (see http://developer.chrome.com/extensions/external_extensions.html) error 15-Nov-2024 00:15:34 [20628:20658:1115/001534.468053:WARNING:dns_client.cc(268)] BuildEffectiveConfig(): invalid configuration error 15-Nov-2024 00:15:34 [20628:20658:1115/001534.469474:WARNING:dns_client.cc(268)] BuildEffectiveConfig(): invalid configuration error 15-Nov-2024 00:15:35 [20597:20597:1115/001534.996203:WARNING:bluez_dbus_manager.cc(247)] Floss manager not present, cannot set Floss enable/disable. error 15-Nov-2024 00:15:35 [20597:20597:1115/001534.996325:ERROR:object_proxy.cc(590)] Failed to call method: org.freedesktop.portal.Settings.Read: object_path= /org/freedesktop/portal/desktop: unknown error type: error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.484217:INFO:CONSOLE(13141)] "J2SApplet load testApplet loadClazz...", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (13141) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.484242:INFO:CONSOLE(13141)] "J2SApplet load testApplet start applet...", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (13141) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.548766:INFO:CONSOLE(13084)] "j2sApplet exec testApplet loadClazz null -- OK", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (13084) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.570126:INFO:CONSOLE(16968)] "j2sApplet exec testApplet start applet null error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.570158:INFO:CONSOLE(13084)] "j2sApplet exec testApplet start applet null -- OK", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (13084) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.575472:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/Class.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.582656:INFO:CONSOLE(26)] "transpiler was unknown now 3.3.1-v1 for java.lang.Class error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html (26) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.582720:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/Jalview.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.589780:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/groovy/JalviewObjectI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.591539:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/Platform.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.594718:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/Console.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.598440:INFO:CONSOLE(16968)] "Platform adding known access-control-allow-origin * for domain https://www.jalview.org error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.598534:INFO:CONSOLE(16968)] "Platform adding known access-control-allow-origin * for domain http://www.jalview.org error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.598561:INFO:CONSOLE(16968)] "Platform adding known access-control-allow-origin * for domain http://www.compbio.dundee.ac.uk error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.598574:INFO:CONSOLE(16968)] "Platform adding known access-control-allow-origin * for domain https://www.compbio.dundee.ac.uk error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.598584:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Hashtable.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.604278:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Dictionary.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.608548:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Map.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.612142:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/HashMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.616919:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/AbstractMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.621808:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSAppletViewer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.625821:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSFrameViewer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.630025:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSApp.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.633203:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/api/js/JSInterface.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.635040:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/applet/AppletStub.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.638094:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/applet/AppletContext.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.640931:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/net/URL.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.643102:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/api/Interface.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.645249:INFO:CONSOLE(16968)] "swingjs.api.Interface creating instance of javajs.util.AjaxURLStreamHandlerFactory error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.645269:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/AjaxURLStreamHandlerFactory.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.647733:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/net/URLStreamHandlerFactory.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.649969:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/AbstractSet.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.652162:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/AbstractCollection.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.654534:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Collection.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.660237:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/Iterable.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.665500:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Set.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.668241:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Enumeration.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.670521:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Iterator.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.673601:INFO:CONSOLE(16968)] "JSApp get parameter: language = null error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.673618:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSUtil.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.686126:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/api/JSUtilI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.689140:INFO:CONSOLE(16968)] "swingjs.JSUtil initialized;debug=false error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.689161:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Locale.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.693497:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/BaseLocale.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.699146:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/StringBuilder.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.702917:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/AbstractStringBuilder.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.706420:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/LocaleUtils.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.713076:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/Enum.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.715205:INFO:CONSOLE(16968)] "JSApp get parameter: name = testApplet error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.715222:INFO:CONSOLE(16968)] "JSApp get parameter: syncId = 450155381498551 error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.715234:INFO:CONSOLE(16968)] "JSApp initialized error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.715250:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Dimension.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.726460:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/geom/Dimension2D.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.729305:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/Lst.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.732376:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/ArrayList.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.736245:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/AbstractList.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.743416:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/List.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.752363:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/RandomAccess.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.756421:INFO:CONSOLE(16968)] "JSAppletViewer initializing2 error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.756439:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Insets.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.759544:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSThreadGroup.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.762462:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/ThreadGroup.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.766377:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/Thread.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.772304:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/JSThread.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.780484:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSAppletThread.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.785720:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/SunToolkit.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.788897:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Toolkit.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.791263:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/ComponentFactory.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.793709:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/EventQueue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.796228:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Queue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.798574:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/AppContext.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.800976:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/PostEventQueue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.803573:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSToolkit.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.806658:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/beans/PropertyChangeSupport.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.810590:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/beans/ChangeListenerMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.813781:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/beans/PropertyChangeListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.815765:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/EventListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.818771:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/MostRecentThreadAppContext.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.821030:INFO:CONSOLE(16968)] "JSToolkit initialized error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.821059:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSGraphicsConfiguration.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.823214:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/GraphicsConfiguration.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.825293:INFO:CONSOLE(16968)] "JSGraphicsConfiguration initialized error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.825332:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/GraphicsEnvironment.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.827323:INFO:CONSOLE(16968)] "swingjs.api.Interface creating instance of swingjs.JSGraphicsEnvironment error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.827344:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSGraphicsEnvironment.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.836184:INFO:CONSOLE(16968)] "JSGraphicsEnvironment initialized error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.836205:INFO:CONSOLE(16968)] "swingjs.api.Interface creating instance of swingjs.JSScreenDevice error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.836219:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSScreenDevice.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.839343:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/GraphicsDevice.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.841657:INFO:CONSOLE(16968)] "JSScreenDevice initialized error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.847971:INFO:CONSOLE(16968)] "JSAppletViewer thread run1 mode=0 status=0 error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.848161:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/SwingUtilities.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.854491:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/SwingConstants.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.858335:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/MostRecentKeyValue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.862459:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/InvocationEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.865741:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/AWTEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.869615:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/EventObject.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.874108:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/ActiveEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.876614:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/AWTAutoShutdown.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.878733:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/HashSet.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.883794:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/IdentityHashMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.887382:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/EventDispatchThread.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.890672:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/EventQueueItem.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.893815:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/EventFilter.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.896284:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Arrays.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.900938:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/LinkedHashMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.905913:INFO:CONSOLE(16968)] "JSAppletViewer thread run1 mode=1 status=1 error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.905941:INFO:CONSOLE(16968)] "JSAppletViewer runloader error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.905952:INFO:CONSOLE(16968)] "JSApp get parameter: main = jalview.bin.Jalview error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.905963:INFO:CONSOLE(16968)] "swingjs.api.Interface creating instance of swingjs.JSDummyApplet error 15-Nov-2024 00:15:35 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.905973:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSDummyApplet.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.908683:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JApplet.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.911063:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/applet/JSApplet.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.913347:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/JSPanel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.915248:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Container.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.918200:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/JSComponent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.921155:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Component.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.925717:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/ImageObserver.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.928525:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/RootPaneContainer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.930758:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/FlowLayout.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.932717:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/LayoutManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.934888:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/ComponentOrientation.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.938586:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JRootPane.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.940453:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JComponent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.946751:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/RequestFocusController.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:35 [20597:20597:1115/001535.949237:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/event/EventListenerList.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.952099:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JPanel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.955105:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/UIManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.957650:INFO:CONSOLE(16968)] "swingjs.api.Interface creating instance of swingjs.plaf.HTML5LookAndFeel error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.957673:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/HTML5LookAndFeel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.960482:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/LookAndFeel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.965528:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/FontUIResource.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.968515:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Font.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.971386:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/UIResource.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.974081:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/UIDefaults.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.977849:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Color.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.980416:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Paint.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.983412:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Transparency.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.985894:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/ColorUIResource.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.990302:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/swing/SwingLazyValue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.992637:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/InsetsUIResource.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.994526:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/BorderUIResource.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.996753:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/border/Border.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001535.998438:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/border/EtchedBorder.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.001389:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/border/AbstractBorder.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.003538:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/DimensionUIResource.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.005708:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/border/EmptyBorder.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.011518:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/RepaintManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.014076:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/SwingPaintEventDispatcher.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.017763:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/PaintEventDispatcher.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.022637:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSPanelUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.024784:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSLightweightUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.026595:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSComponentUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.031106:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/ComponentUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.033048:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/peer/ComponentPeer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.035350:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSEventHandler.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.037503:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/event/ChangeListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.045616:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/dnd/peer/DropTargetPeer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.049272:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/peer/LightweightPeer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.052161:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/peer/ContainerPeer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.055499:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/beans/PropertyChangeEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.058022:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/KeyboardFocusManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.061084:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/KeyEventDispatcher.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.063958:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/KeyEventPostProcessor.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.065381:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/AWTKeyStroke.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.068141:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/LinkedList.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.070499:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/AbstractSequentialList.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.073326:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Deque.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.075107:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Queue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.077289:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/DefaultKeyboardFocusManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.080199:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/DefaultFocusTraversalPolicy.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.083996:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/ContainerOrderFocusTraversalPolicy.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.086407:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/FocusTraversalPolicy.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.087768:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Collections.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.095196:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSFocusPeer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.097880:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/peer/KeyboardFocusManagerPeer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.101561:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/api/js/DOMNode.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.103961:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Cursor.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.108010:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JLayeredPane.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.110565:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSLayeredPaneUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.113922:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/BorderLayout.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.115724:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/LayoutManager2.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.118625:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/ArrayTable.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.121104:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/FocusManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.124530:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/LayoutFocusTraversalPolicy.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.127050:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/SortingFocusTraversalPolicy.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.129300:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/InternalFrameFocusTraversalPolicy.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.131581:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/SwingContainerOrderFocusTraversalPolicy.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.133474:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/SwingDefaultFocusTraversalPolicy.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.135820:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/LayoutComparator.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.137909:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Comparator.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.140134:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSRootPaneUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.143474:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSAppletUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.147387:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/LightweightDispatcher.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.149467:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/AWTEventListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.151670:INFO:CONSOLE(16968)] "testApplet loaded error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.151822:INFO:CONSOLE(298)] "testApplet loaded", source: swingjs/j2s/swingjs/JSUtil.js (298) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.174227:INFO:CONSOLE(16968)] "JSAppletViewer thread run1 mode=1 status=76 error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.174250:INFO:CONSOLE(16968)] "testApplet running jalview.bin.Jalview error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.174264:INFO:CONSOLE(298)] "testApplet running jalview.bin.Jalview", source: swingjs/j2s/swingjs/JSUtil.js (298) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.175017:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/PT.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.177623:INFO:CONSOLE(16968)] "Running main(args) in class jalview.bin.Jalview error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.183037:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/argparser/BootstrapArgs.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.185278:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Objects.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.189700:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/argparser/Arg.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.193519:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/ChannelProperties.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.195764:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Properties.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.198803:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/File.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.201237:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/FileSystem.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.203950:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/AjaxURLStreamHandler.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.204981:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/net/URLStreamHandler.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.208425:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/channel.props", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.219300:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/BufferedInputStream.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.221458:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/FilterInputStream.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.223738:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/InputStream.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.226224:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/Closeable.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.228050:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/AutoCloseable.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.229663:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/ByteArrayInputStream.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.232886:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/HttpUtils.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.235265:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/AjaxURLConnection.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.237599:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/net/HttpURLConnection.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.240727:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/net/URLConnection.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.243284:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/net/ContentHandler.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.245460:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/Rdr.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.248118:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/api/GenericLineReader.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.249715:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/AU.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.254113:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/jalview_test-release_logo-16.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.257272:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/ImageIcon.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.259512:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/Icon.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.262006:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/SB.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.264649:INFO:CONSOLE(16968)] "swingjs.api.Interface creating instance of swingjs.JSImagekit error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.264666:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSImagekit.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.273323:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/ImageConsumer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.275513:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSImage.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.278259:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/BufferedImage.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.282184:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Image.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.284232:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/RenderedImage.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.287285:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/ColorModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.289333:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/DirectColorModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.291734:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/PackedColorModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.294205:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/color/ColorSpace.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.296357:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/Raster.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.298637:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/DataBufferInt.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.300173:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/DataBuffer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.302420:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/image/DataStealer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.304206:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/image/SunWritableRaster.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.306220:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/WritableRaster.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.308655:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/java2d/StateTrackable.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.310400:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/java2d/StateTrackableDelegate.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.312270:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Point.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.314330:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/geom/Point2D.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.316937:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/SinglePixelPackedSampleModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.320004:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/image/SampleModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.322065:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/image/IntegerInterleavedRaster.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.325101:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/image/IntegerComponentRaster.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.327519:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Rectangle.js", source: 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[20597:20597:1115/001536.342508:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javajs/util/Base64.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.348405:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/jalview_test-release_logo-32.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.352240:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/jalview_test-release_logo-48.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.356388:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/jalview_test-release_logo-64.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.359699:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/jalview_test-release_logo-128.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.362705:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/jalview_test-release_logo-256.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.370641:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/jalview_test-release_logo-512.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.381829:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/Cache.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.385668:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/datamodel/PDBEntry.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.388533:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/structure/StructureImportSettings.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.390228:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/DateFormat.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.392501:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/Format.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.394676:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/spi/DateFormatProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.396825:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/spi/LocaleServiceProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.402391:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/LocaleProviderAdapter.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.404191:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/JRELocaleProviderAdapter.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.406961:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/ResourceBundleBasedAdapter.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.413622:INFO:CONSOLE(9663)] "xhr.open async=false 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[20597:20597:1115/001536.433959:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/security/AccessController.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.435767:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/DateFormatProviderImpl.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.438907:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/AvailableLanguageTags.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.442088:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/LanguageTag.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.445285:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/SimpleDateFormat.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.448005:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/AttributedCharacterIterator.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.450651:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/CharacterIterator.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.460796:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/TimeZone.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.475210:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/calendar/ZoneInfo.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.477914:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/calendar/ZoneInfoFile.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.481017:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/sun/util/calendar/tzdb.dat", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.488996:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/DataInputStream.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.490758:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/io/DataInput.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.503921:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Calendar.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.506664:INFO:CONSOLE(9663)] 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file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.516511:INFO:CONSOLE(16968)] "swingjs.api.Interface creating instance of sun.util.calendar.Gregorian error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.516649:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/calendar/Gregorian.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.518286:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/calendar/BaseCalendar.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.523765:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/calendar/AbstractCalendar.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.526512:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/CalendarDataUtility.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.528937:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/spi/CalendarDataProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.530936:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/LocaleServiceProviderPool.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.533418:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/spi/BreakIteratorProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.535217:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/spi/CollatorProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.536882:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/spi/DateFormatSymbolsProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.538517:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/spi/DecimalFormatSymbolsProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.540341:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/spi/NumberFormatProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.542021:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/spi/CurrencyNameProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.544101:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/spi/LocaleNameProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.545973:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/spi/TimeZoneNameProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.548051:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/CalendarDataProviderImpl.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.550180:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/security/PrivilegedExceptionAction.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.551957:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/ServiceLoader.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.555193:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/locale/provider/LocaleResources.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.557543:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/ref/ReferenceQueue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.559512:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/resources/LocaleData.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.561457:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/ResourceBundle.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.565537:INFO:CONSOLE(16968)] "JSUtil getting Java resource sun/util/resources/CalendarData.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.566548:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/sun/util/resources/CalendarData.properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.567956:INFO:CONSOLE(16968)] "JSUtil caching 1780 bytes for swingjs/j2s/sun/util/resources/CalendarData.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.568010:INFO:CONSOLE(16968)] "swingjs.api.Interface creating instance of java.util.PropertyResourceBundle error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.568542:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/PropertyResourceBundle.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.575578:INFO:CONSOLE(16968)] "JSUtil getting Java resource sun/util/resources/en/CalendarData_en.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.575600:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/sun/util/resources/en/CalendarData_en.properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.577950:INFO:CONSOLE(16968)] "JSUtil caching 1943 bytes for swingjs/j2s/sun/util/resources/en/CalendarData_en.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.577969:INFO:CONSOLE(16968)] "JSUtil getting Java resource sun/util/resources/en/CalendarData_en_GB.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.577983:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/sun/util/resources/en/CalendarData_en_GB.properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.583781:INFO:CONSOLE(16968)] "JSUtil caching 1786 bytes for swingjs/j2s/sun/util/resources/en/CalendarData_en_GB.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.583801:INFO:CONSOLE(16968)] "JSUtil getting Java resource sun/util/resources/CalendarData.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.583817:INFO:CONSOLE(16968)] "JSUtil getting Java resource sun/util/resources/en/CalendarData_en.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.583827:INFO:CONSOLE(16968)] "JSUtil getting Java resource sun/util/resources/en/CalendarData_en_GB.properties error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.583839:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/calendar/CalendarDate.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.587302:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/calendar/CalendarUtils.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.589577:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/DateFormatSymbols.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.592541:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/text/resources/FormatData.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.594521:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/util/resources/ParallelListResourceBundle.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.597609:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/text/resources/en/FormatData_en.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.598899:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/text/resources/en/FormatData_en_GB.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.602342:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/NumberFormat.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.604946:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/DecimalFormatSymbols.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.607611:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/DecimalFormat.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.612025:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/FieldPosition.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.615416:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/text/DigitList.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.617598:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/math/RoundingMode.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.625206:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/LaunchUtils.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.627211:INFO:CONSOLE(16968)] "Jalview Test Version: TEST error 15-Nov-2024 00:15:36 Jalview Test Installation: unknown error 15-Nov-2024 00:15:36 Channel: test-release error 15-Nov-2024 00:15:36 Build Date: unknown error 15-Nov-2024 00:15:36 Preferences file: unknown error 15-Nov-2024 00:15:36 Log file: unknown error 15-Nov-2024 00:15:36 Java version: 1.8 error 15-Nov-2024 00:15:36 Java home: https://. error 15-Nov-2024 00:15:36 Java launch class: unknown error 15-Nov-2024 00:15:36 Java platform: Mozilla/5.0 5.0 (X11) (Mozilla/5.0 (X11; Linux x86_64) AppleWebKit/537.36 (KHTML, like Gecko) Chrome/114.0.0.0 Safari/537.36) error 15-Nov-2024 00:15:36 Java LAF: SwingJS (swingjs.plaf.HTML5LookAndFeel) error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.627594:INFO:CONSOLE(26)] "Using default properties file '/TEMP/swingjs/.jalview_test_properties' error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html (26) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.627644:INFO:CONSOLE(26)] "Falling back to properties file '/TEMP/swingjs/.jalview_properties' error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html (26) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.627687:INFO:CONSOLE(26)] "Could not load bootstrap preferences file '/TEMP/swingjs/.jalview_properties' error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html (26) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.628051:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/.build_properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.630611:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/.build_properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.632850:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/BuildDetails.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.634370:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/api/BuildDetailsI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.636264:INFO:CONSOLE(16968)] "Jalview Test version: 2.11.4.2-test (Source git-commit:544bd63f8e [develop]) error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.636378:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/ArgsParser.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.638383:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Vector.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.641280:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/log/JLoggerI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.644523:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/log/JLogger.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.647424:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/log/JLoggerLog4j.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.650369:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/Runtime.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.654928:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/ApplicationShutdownHooks.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.657024:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/Shutdown.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.659920:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/authors.props", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.662009:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/authors.props", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.663840:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/.build_properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.665653:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/ws/sifts/SiftsSettings.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.667993:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/urls/IdOrgSettings.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.670011:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/PIRFile.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.672292:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/AlignFile.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.673823:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/FileParse.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.676557:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/AlignmentFileReaderI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.677938:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/AlignmentFileWriterI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.679962:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/argparser/ArgParser.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.683561:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/EnumSet.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.685525:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/JumboEnumSet.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.688693:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/ArgParserUtils.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.691113:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/FileFormats.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.693288:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/FileFormat.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.695256:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/FileFormatI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.704307:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/UserAgent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.706641:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/gui/Desktop.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.710715:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/jbgui/GDesktop.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.713519:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JFrame.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.716005:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/JSFrame.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.717684:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Window.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.720554:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/WindowConstants.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.722464:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/dnd/DropTargetListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.724020:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/datatransfer/ClipboardOwner.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.726418:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/gui/IProgressIndicator.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.728014:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/api/StructureSelectionManagerProvider.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.734346:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/gui/SplashScreen.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.742159:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/event/HyperlinkListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.744631:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/barton_group-32.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.747748:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/images/UoD_banner-32.png", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.755026:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSGraphics2D.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.758381:INFO:CONSOLE(16968)] "JSGraphics2D pixelRatio is 1.0 error 15-Nov-2024 00:15:36 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.758583:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/RenderingHints.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.762067:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/geom/AffineTransform.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.766651:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/BasicStroke.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.775416:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Stroke.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.785995:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSFrameUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.789440:INFO:CONSOLE(9663)] 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file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.798049:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/peer/FramePeer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.801421:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/AWTEventMulticaster.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.803553:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/ContainerListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.805421:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/FocusListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.807299:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/KeyListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.809144:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/MouseListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.810888:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/MouseMotionListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.812787:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/WindowFocusListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.814354:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/WindowStateListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.815814:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/ActionListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.818100:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/ItemListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.820351:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/AdjustmentListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.821865:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/TextListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.822932:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/InputMethodListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.824423:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/HierarchyListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.826484:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/HierarchyBoundsListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.828164:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/MouseWheelListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.833876:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JMenuBar.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.836339:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/MenuElement.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.837820:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/DefaultSingleSelectionModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.839788:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/SingleSelectionModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.841899:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSMenuBarUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.844672:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/DefaultMenuLayout.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.846480:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/BoxLayout.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.849260:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/swing/DefaultLookup.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.851314:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/LazyActionMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.853115:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/ActionMapUIResource.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.855263:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/ActionMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.857425:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JMenu.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.859798:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JMenuItem.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.861873:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/AbstractButton.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.864538:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/ItemSelectable.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.866725:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/DefaultButtonModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.868550:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/ButtonModel.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.871137:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSMenuUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.872877:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSMenuItemUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.874492:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSButtonUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.876632:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/event/MenuListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.879144:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/basic/BasicBorders.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.881377:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/reflect/Constructor.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.883025:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/reflect/AccessibleObject.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.885530:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/lang/reflect/AnnotatedElement.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.887780:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/ButtonListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.890801:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/event/AncestorListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.893099:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/plaf/ComponentInputMapUIResource.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.894710:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/ComponentInputMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.896581:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/InputMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.908751:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/BorderFactory.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.910839:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/border/BevelBorder.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.942088:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JCheckBoxMenuItem.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.944421:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JToggleButton.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.946895:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSCheckBoxMenuItemUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.948458:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSCheckBoxUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:36 [20597:20597:1115/001536.950245:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSRadioButtonUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.969967:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/gui/APQHandlers.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.972032:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/MessageManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.974041:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/Formatter.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.978093:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/regex/Pattern.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.983286:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/regex/Matcher.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.986383:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/regex/MatchResult.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.989231:INFO:CONSOLE(16968)] "INFO: Getting messages for lang: en_GB error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.989641:INFO:CONSOLE(16968)] "JSUtil getting Java resource lang/Messages.properties error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.989843:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/lang/Messages.properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:37 [20597:20597:1115/001536.996434:INFO:CONSOLE(16968)] "JSUtil caching 90933 bytes for swingjs/j2s/lang/Messages.properties error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.019068:INFO:CONSOLE(16968)] "JSUtil getting Java resource lang/Messages_en.properties error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.019090:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/lang/Messages_en.properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.024996:INFO:CONSOLE(16968)] "JSUtil getting Java resource lang/Messages_en_GB.properties error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.025020:INFO:CONSOLE(10504)] "xhr.open binary async=false url=swingjs/j2s/lang/Messages_en_GB.properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.030483:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/JSFontMetrics.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.032708:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/FontMetrics.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.034835:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/font/FontRenderContext.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.049908:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/ShortcutKeyMaskExWrapper.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.052359:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/ShortcutKeyMaskExWrapper8.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.054337:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/util/ShortcutKeyMaskExWrapperI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.056951:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/KeyStroke.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.060487:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/KeyEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.063652:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/InputEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.066157:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/ComponentEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.092364:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/ToolTipManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.094910:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/MouseAdapter.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.096996:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/Timer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.099491:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/MouseMotionAdapter.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.103388:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/ContainerEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.106299:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JPopupMenu.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.108977:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSPopupMenuUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.111237:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/jquery/JQueryUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.117050:INFO:CONSOLE(16968)] "JSUtil getting Java resource swingjs/jquery/j2sMenu.js error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.117290:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/jquery/j2sMenu.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.121044:INFO:CONSOLE(16968)] "Processing swingjs/j2s/swingjs/jquery/j2sMenu.js [24845] error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.121068:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/event/MenuKeyListener.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.123195:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/WindowAdapter.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.130130:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/border/CompoundBorder.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.133554:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JSeparator.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.135661:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSPopupMenuSeparatorUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.137408:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSSeparatorUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.165634:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/KeyboardManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.190299:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/SizeRequirements.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.202346:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/event/ChangeEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.229152:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/gui/JalviewChangeSupport.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.231207:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/Executors.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.234038:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/TimeUnit.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.237090:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/LinkedBlockingQueue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.239442:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/AbstractQueue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.243126:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/BlockingQueue.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.245874:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/atomic/AtomicInteger.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.247625:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/locks/ReentrantLock.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.249439:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/locks/Lock.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.251130:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/locks/AbstractQueuedSynchronizer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.254094:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/locks/AbstractOwnableSynchronizer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.255818:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/locks/Condition.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.258340:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/ThreadPoolExecutor.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.260326:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/AbstractExecutorService.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.262997:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/ExecutorService.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.264747:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/Executor.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.266246:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/RejectedExecutionHandler.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.268237:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/ThreadFactory.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.270077:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/concurrent/Semaphore.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.272391:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/structure/StructureSelectionManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.276192:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/JDesktopPane.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.284806:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/JSDesktopPaneUI.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.287956:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/DefaultDesktopManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.290144:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/swing/DesktopManager.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.296569:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/dnd/DropTarget.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.298830:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/dnd/DropTargetContext.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.301449:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/datatransfer/SystemFlavorMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.303735:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/datatransfer/FlavorMap.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.305825:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/datatransfer/FlavorTable.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.308940:INFO:CONSOLE(16968)] "INFO: JALVIEWJS: CREATED DESKTOP error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.309131:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/JalviewTaskbar.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.310793:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/Taskbar.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.317324:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/plaf/Resizer.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.319920:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/api/js/JSFunction.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.336209:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/WindowEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.338201:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/bin/Commands.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.342058:INFO:CONSOLE(16968)] "WARN: Error when running commands error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (16968) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.342216:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/jalview/io/FileLoader.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.369733:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/javax/net/ssl/HttpsURLConnection.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.371558:INFO:CONSOLE(10504)] "xhr.open binary async=false url=https://www.jalview.org/jalview-js//swingjs/j2s/build_properties", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (10504) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.384146:INFO:CONSOLE(26)] "Non-fatal exception when checking version at https://www.jalview.org/jalview-js//swingjs/j2s/build_properties: error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html (26) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.384397:INFO:CONSOLE(26)] "java.io.FileNotFoundException: opening https://www.jalview.org/jalview-js//swingjs/j2s/build_properties error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html (26) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.384660:INFO:CONSOLE(26)] "anonymous.anonymous(Unknown Source) error 15-Nov-2024 00:15:37 ", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/jalview_bin_Jalview-stderr.html (26) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.396828:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/swingjs/api/js/HTML5CanvasContext2D.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.400334:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/GraphicsCallback.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.403249:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/SunGraphicsCallback.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.432919:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/CausedFocusEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.437757:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/event/FocusEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.441378:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/TimSort.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.446225:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/util/ListIterator.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.499406:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/java/awt/SentEvent.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.507133:INFO:CONSOLE(9663)] "xhr.open async=false url=swingjs/j2s/sun/awt/EventQueueItem.js", source: file:///srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build/jalviewjs/site/swingjs/swingjs2.js (9663) error 15-Nov-2024 00:15:37 [20597:20597:1115/001537.583331:WARNING:pref_notifier_impl.cc(41)] Pref observer for media_router.cast_allow_all_ips found at shutdown. build 15-Nov-2024 00:15:37 build 15-Nov-2024 00:15:37 > Task :jalviewjsLaunchTest build 15-Nov-2024 00:15:37 Found line '[20597:20597:1115/001537.308940:INFO:CONSOLE(16968)] "INFO: JALVIEWJS: CREATED DESKTOP' build 15-Nov-2024 00:15:37 :jalviewjsLaunchTest (Thread[Execution worker for ':',5,main]) completed. Took 6.36 secs. build 15-Nov-2024 00:15:37 :jalviewjs (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:37 build 15-Nov-2024 00:15:37 > Task :jalviewjs build 15-Nov-2024 00:15:37 Skipping task ':jalviewjs' as it has no actions. build 15-Nov-2024 00:15:37 :jalviewjs (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:15:37 producer locations for task group 0 (Thread[Execution worker for ':',5,main]) started. build 15-Nov-2024 00:15:37 producer locations for task group 0 (Thread[Execution worker for ':',5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:15:37 producer locations for task group 1 (Thread[Execution worker for ':' Thread 2,5,main]) started. build 15-Nov-2024 00:15:37 producer locations for task group 1 (Thread[Execution worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:15:37 producer locations for task group 2 (Thread[Execution worker for ':' Thread 2,5,main]) started. build 15-Nov-2024 00:15:37 producer locations for task group 2 (Thread[Execution worker for ':' Thread 2,5,main]) completed. Took 0.0 secs. build 15-Nov-2024 00:15:37 build 15-Nov-2024 00:15:37 Deprecated Gradle features were used in this build, making it incompatible with Gradle 8.0. build 15-Nov-2024 00:15:37 build 15-Nov-2024 00:15:37 You can use '--warning-mode all' to show the individual deprecation warnings and determine if they come from your own scripts or plugins. build 15-Nov-2024 00:15:37 build 15-Nov-2024 00:15:37 See https://docs.gradle.org/7.4.2/userguide/command_line_interface.html#sec:command_line_warnings build 15-Nov-2024 00:15:37 build 15-Nov-2024 00:15:37 Execution optimizations have been disabled for 2 invalid unit(s) of work during this build to ensure correctness. build 15-Nov-2024 00:15:37 Please consult deprecation warnings for more details. build 15-Nov-2024 00:15:37 build 15-Nov-2024 00:15:37 BUILD SUCCESSFUL in 1m 34s build 15-Nov-2024 00:15:37 27 actionable tasks: 25 executed, 2 up-to-date simple 15-Nov-2024 00:15:37 Finished task 'JalviewJS ${bamboo.CHANNEL} release' with result: Success command 15-Nov-2024 00:15:37 Substituting variable: ${bamboo.CHANNEL} with TEST-RELEASE simple 15-Nov-2024 00:15:37 Starting task 'Create tar of getdown ${bamboo.CHANNEL} channel website' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' command 15-Nov-2024 00:15:37 Beginning to execute external process for build 'Jalview Builds - Getdown TEST_RELEASE Channel - Default Job #15 (JB-GTC-JOB1-15)'\n ... running command line: \n/srv/bamboo/bamboo-home/temp/JB-GTC-JOB1-15-ScriptBuildTask-322967996590185579.sh\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=develop\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nbamboo_planRepository_1_branchDisplayName=develop\nbamboo_repository_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GTC-JOB1\nbamboo_shortPlanName=Getdown TEST_RELEASE Channel\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497968_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildNumber=15\nbamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_46497968_git_username=\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown TEST_RELEASE Channel\nbamboo_shortPlanKey=GTC\nbamboo_repository_46497968_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildTimeStamp=2024-11-15T00:00:00.311Z\nbamboo_repository_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_repository_git_branch=develop\nbamboo_buildResultKey=JB-GTC-JOB1-15\nbamboo_repository_branch_name=develop\nbamboo_buildPlanName=Jalview Builds - Getdown TEST_RELEASE Channel - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_CHANNEL=TEST-RELEASE\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_7=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC --info eclipse jalviewjsCreateJ2sSettings jalviewjs\nbamboo_repository_46497968_name=Jalview Git\nbamboo_repository_name=Jalview Git\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_2=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GTC clean getdown shadowJar\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=develop\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_branchDisplayName=develop\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=develop\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301535\nbamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle\nbamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=gitv2\nbamboo_repository_46497968_git_branch=develop\nbamboo_repository_46497968_branch_name=develop\nbamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_capability_system_builder_ant_Ant=/usr/share/ant\nbamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven\nbamboo_tmp_directory=/srv/bamboo/bamboo-home/temp\nbamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planKey=JB-GTC\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_repository_46497968_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_8=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=1.8 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC getdown shadowJar\nbamboo_planRepository_1_branchName=develop\n build 15-Nov-2024 00:15:37 11/ build 15-Nov-2024 00:15:37 11/channel_launch-test-release.jvl build 15-Nov-2024 00:15:37 11/install/ build 15-Nov-2024 00:15:37 11/install/build_properties build 15-Nov-2024 00:15:37 11/install/getdown-launcher.jar build 15-Nov-2024 00:15:38 11/install/getdown.txt build 15-Nov-2024 00:15:38 11/digest2.txt build 15-Nov-2024 00:15:38 11/channel.props build 15-Nov-2024 00:15:38 11/getdown-launcher-new.jar build 15-Nov-2024 00:15:38 11/alt/ build 15-Nov-2024 00:15:38 11/alt/Jmol-NO_LOG4J-14.31.53.jar build 15-Nov-2024 00:15:38 11/alt/log4j-core-2.17.1.jar build 15-Nov-2024 00:15:38 11/alt/groovy-ant-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/apache-mime4j-0.6.jar build 15-Nov-2024 00:15:38 11/alt/groovy-console-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/axis.jar build 15-Nov-2024 00:15:38 11/alt/groovy-nio-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/javax.activation-api-1.2.0.jar build 15-Nov-2024 00:15:38 11/alt/jaxb-runtime-2.3.2.jar build 15-Nov-2024 00:15:38 11/alt/groovy-astbuilder-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/commons-math3-3.6.1.jar build 15-Nov-2024 00:15:38 11/alt/groovy-json-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/httpclient-4.0.3.jar build 15-Nov-2024 00:15:38 11/alt/jaxws-api-2.3.1.jar build 15-Nov-2024 00:15:38 11/alt/saaj-impl.jar build 15-Nov-2024 00:15:38 11/alt/mail-MODULE.jar build 15-Nov-2024 00:15:38 11/alt/groovy-groovydoc-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/httpcore-4.0.1.jar build 15-Nov-2024 00:15:38 11/alt/groovy-test-junit5-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/regex.jar build 15-Nov-2024 00:15:38 11/alt/jetty-http-9.2.10.v20150310.jar build 15-Nov-2024 00:15:38 11/alt/groovy-macro-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/commons-discovery.jar build 15-Nov-2024 00:15:38 11/alt/biojava-ontology-4.1.0.jar build 15-Nov-2024 00:15:38 11/alt/jetty-io-9.2.10.v20150310.jar build 15-Nov-2024 00:15:38 11/alt/istack-commons-runtime.jar build 15-Nov-2024 00:15:38 11/alt/jersey-json-1.19.4.jar build 15-Nov-2024 00:15:38 11/alt/gmbal-api-only-MODULE.jar build 15-Nov-2024 00:15:38 11/alt/javax.xml.soap-api-1.4.0.jar build 15-Nov-2024 00:15:38 11/alt/groovy-testng-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/groovy-groovysh-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/commons-codec-1.3.jar build 15-Nov-2024 00:15:38 11/alt/jetty-server-9.2.10.v20150310.jar build 15-Nov-2024 00:15:38 11/alt/javaparser-core-3.25.5.jar build 15-Nov-2024 00:15:38 11/alt/jfreesvg-3.4.3.jar build 15-Nov-2024 00:15:38 11/alt/log4j-slf4j18-impl-2.17.1.jar build 15-Nov-2024 00:15:38 11/alt/commons-logging-1.1.1.jar build 15-Nov-2024 00:15:38 11/alt/slf4j-nop-1.7.36.jar build 15-Nov-2024 00:15:38 11/alt/groovy-sql-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/VARNAv3-93.jar build 15-Nov-2024 00:15:38 11/alt/json-simple-1.1.1.jar build 15-Nov-2024 00:15:38 11/alt/flatlaf-3.2.jar build 15-Nov-2024 00:15:38 11/alt/FastInfoset.jar build 15-Nov-2024 00:15:38 11/alt/groovy-jsr223-4.0.15.jar build 15-Nov-2024 00:15:38 11/alt/javax.annotation-api-1.3.2.jar build 15-Nov-2024 00:15:38 11/alt/javax.xml.rpc-api-1.1.2.jar build 15-Nov-2024 00:15:38 11/alt/groovy-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/jsoup-1.8.1.jar build 15-Nov-2024 00:15:39 11/alt/biojava-core-4.1.0.jar build 15-Nov-2024 00:15:39 11/alt/jaxb-api-2.3.1.jar build 15-Nov-2024 00:15:39 11/alt/groovy-cli-commons-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/jalview.jar build 15-Nov-2024 00:15:39 11/alt/jersey-client-1.19.4.jar build 15-Nov-2024 00:15:39 11/alt/javax.servlet-api-4.0.1.jar build 15-Nov-2024 00:15:39 11/alt/policy-2.7.6.jar build 15-Nov-2024 00:15:39 11/alt/xercesImpl.jar build 15-Nov-2024 00:15:39 11/alt/groovy-yaml-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/flatlaf-extras-3.2.jar build 15-Nov-2024 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11/alt/vamsas-client.jar build 15-Nov-2024 00:15:39 11/alt/httpmime-4.0.3.jar build 15-Nov-2024 00:15:39 11/alt/htsjdk-2.23.0.jar build 15-Nov-2024 00:15:39 11/alt/stax-ex-1.8.1.jar build 15-Nov-2024 00:15:39 11/alt/build_properties build 15-Nov-2024 00:15:39 11/alt/groovy-docgenerator-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/groovy-cli-picocli-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/stax2-api-4.2.jar build 15-Nov-2024 00:15:39 11/alt/groovy-datetime-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/java-json.jar build 15-Nov-2024 00:15:39 11/alt/log4j-api-2.17.1.jar build 15-Nov-2024 00:15:39 11/alt/libquaqua-8.0.jnilib.jar build 15-Nov-2024 00:15:39 11/alt/mimepull-1.9.11.jar build 15-Nov-2024 00:15:39 11/alt/groovy-contracts-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/groovy-test-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/jhall.jar build 15-Nov-2024 00:15:39 11/alt/groovy-servlet-4.0.15.jar build 15-Nov-2024 00:15:39 11/alt/jabaws-min-client-NO_LOG4J-2.2.1.jar build 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11/getdown.txt build 15-Nov-2024 00:15:39 11/bin/ build 15-Nov-2024 00:15:39 11/bin/update.sh build 15-Nov-2024 00:15:39 11/bin/jalview.ps1 build 15-Nov-2024 00:15:39 11/bin/update.ps1 build 15-Nov-2024 00:15:39 11/bin/jalview_test_update.ps1 build 15-Nov-2024 00:15:39 11/bin/jalview_test.ps1 build 15-Nov-2024 00:15:39 11/bin/jalview_test_update.bat build 15-Nov-2024 00:15:39 11/bin/jalview_test.bat build 15-Nov-2024 00:15:39 11/bin/jalview.sh build 15-Nov-2024 00:15:39 11/digest.txt build 15-Nov-2024 00:15:39 1.8/ build 15-Nov-2024 00:15:39 1.8/channel_launch-test-release.jvl build 15-Nov-2024 00:15:39 1.8/install/ build 15-Nov-2024 00:15:39 1.8/install/build_properties build 15-Nov-2024 00:15:39 1.8/install/getdown-launcher.jar build 15-Nov-2024 00:15:39 1.8/install/getdown.txt build 15-Nov-2024 00:15:39 1.8/digest2.txt build 15-Nov-2024 00:15:39 1.8/channel.props build 15-Nov-2024 00:15:39 1.8/getdown-launcher-new.jar build 15-Nov-2024 00:15:39 1.8/alt/ build 15-Nov-2024 00:15:39 1.8/alt/Jmol-NO_LOG4J-14.31.53.jar build 15-Nov-2024 00:15:40 1.8/alt/log4j-core-2.17.1.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-ant-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/apache-mime4j-0.6.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-console-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/axis.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-nio-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-astbuilder-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/commons-math3-3.6.1.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-json-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/httpclient-4.0.3.jar build 15-Nov-2024 00:15:40 1.8/alt/jaxrpc.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-groovydoc-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/httpcore-4.0.1.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-test-junit5-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/regex.jar build 15-Nov-2024 00:15:40 1.8/alt/jetty-http-9.2.10.v20150310.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-macro-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/commons-discovery.jar build 15-Nov-2024 00:15:40 1.8/alt/biojava-ontology-4.1.0.jar build 15-Nov-2024 00:15:40 1.8/alt/jetty-io-9.2.10.v20150310.jar build 15-Nov-2024 00:15:40 1.8/alt/jersey-json-1.19.4.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-testng-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-groovysh-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/commons-codec-1.3.jar build 15-Nov-2024 00:15:40 1.8/alt/jetty-server-9.2.10.v20150310.jar build 15-Nov-2024 00:15:40 1.8/alt/javaparser-core-3.25.5.jar build 15-Nov-2024 00:15:40 1.8/alt/jfreesvg-3.4.3.jar build 15-Nov-2024 00:15:40 1.8/alt/log4j-slf4j18-impl-2.17.1.jar build 15-Nov-2024 00:15:40 1.8/alt/commons-logging-1.1.1.jar build 15-Nov-2024 00:15:40 1.8/alt/slf4j-nop-1.7.36.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-sql-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/VARNAv3-93.jar build 15-Nov-2024 00:15:40 1.8/alt/json-simple-1.1.1.jar build 15-Nov-2024 00:15:40 1.8/alt/flatlaf-3.2.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-jsr223-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/jsoup-1.8.1.jar build 15-Nov-2024 00:15:40 1.8/alt/biojava-core-4.1.0.jar build 15-Nov-2024 00:15:40 1.8/alt/groovy-cli-commons-4.0.15.jar build 15-Nov-2024 00:15:40 1.8/alt/jalview.jar build 15-Nov-2024 00:15:41 1.8/alt/wsdl4j.jar build 15-Nov-2024 00:15:41 1.8/alt/jersey-client-1.19.4.jar build 15-Nov-2024 00:15:41 1.8/alt/xercesImpl.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-yaml-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/flatlaf-extras-3.2.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-typecheckers-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/servlet-api-3.1.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-xml-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-toml-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/jetty-util-9.2.10.v20150310.jar build 15-Nov-2024 00:15:41 1.8/alt/xml-apis.jar build 15-Nov-2024 00:15:41 1.8/alt/slf4j-api-1.7.36.jar build 15-Nov-2024 00:15:41 1.8/alt/jersey-core-1.19.4.jar build 15-Nov-2024 00:15:41 1.8/alt/jswingreader-0.3.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-ginq-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-templates-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/activation.jar build 15-Nov-2024 00:15:41 1.8/alt/intervalstore-v1.1.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-jmx-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/getdown-core.jar build 15-Nov-2024 00:15:41 1.8/alt/jsr311-api-1.1.1.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-swing-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-macro-library-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/vamsas-client.jar build 15-Nov-2024 00:15:41 1.8/alt/saaj.jar build 15-Nov-2024 00:15:41 1.8/alt/httpmime-4.0.3.jar build 15-Nov-2024 00:15:41 1.8/alt/htsjdk-2.23.0.jar build 15-Nov-2024 00:15:41 1.8/alt/build_properties build 15-Nov-2024 00:15:41 1.8/alt/groovy-docgenerator-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/mail.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-cli-picocli-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-datetime-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/java-json.jar build 15-Nov-2024 00:15:41 1.8/alt/log4j-api-2.17.1.jar build 15-Nov-2024 00:15:41 1.8/alt/libquaqua-8.0.jnilib.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-contracts-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-test-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/jhall.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-servlet-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/jabaws-min-client-NO_LOG4J-2.2.1.jar build 15-Nov-2024 00:15:41 1.8/alt/groovy-dateutil-4.0.15.jar build 15-Nov-2024 00:15:41 1.8/alt/libquaqua64-8.0.jnilib.jar build 15-Nov-2024 00:15:41 1.8/alt/miglayout-4.0-swing.jar build 15-Nov-2024 00:15:41 1.8/resource/ build 15-Nov-2024 00:15:41 1.8/resource/jalview_test-release_getdown_background_error.png build 15-Nov-2024 00:15:41 1.8/resource/jalview_test-release_getdown_background_initialising.png build 15-Nov-2024 00:15:41 1.8/resource/jalview_test-release_logo.png build 15-Nov-2024 00:15:41 1.8/resource/jalview_test-release_logo.icns build 15-Nov-2024 00:15:41 1.8/resource/jalview_getdown_progress_bar.png build 15-Nov-2024 00:15:41 1.8/resource/jalview_test-release_getdown_background.png build 15-Nov-2024 00:15:41 1.8/resource/getdown-core.jar build 15-Nov-2024 00:15:41 1.8/getdown-launcher.jar build 15-Nov-2024 00:15:41 1.8/getdown.txt build 15-Nov-2024 00:15:41 1.8/bin/ build 15-Nov-2024 00:15:41 1.8/bin/update.sh build 15-Nov-2024 00:15:41 1.8/bin/jalview.ps1 build 15-Nov-2024 00:15:41 1.8/bin/update.ps1 build 15-Nov-2024 00:15:41 1.8/bin/jalview_test_update.ps1 build 15-Nov-2024 00:15:41 1.8/bin/jalview_test.ps1 build 15-Nov-2024 00:15:41 1.8/bin/jalview_test_update.bat build 15-Nov-2024 00:15:41 1.8/bin/jalview_test.bat build 15-Nov-2024 00:15:41 1.8/bin/jalview.sh build 15-Nov-2024 00:15:41 1.8/digest.txt simple 15-Nov-2024 00:15:41 Finished task 'Create tar of getdown ${bamboo.CHANNEL} channel website' with result: Success command 15-Nov-2024 00:15:41 Substituting variable: ${bamboo.CHANNEL} with TEST-RELEASE simple 15-Nov-2024 00:15:41 Starting task 'Create tar of DEVELOP channel executable jar' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' command 15-Nov-2024 00:15:41 Beginning to execute external process for build 'Jalview Builds - Getdown TEST_RELEASE Channel - Default Job #15 (JB-GTC-JOB1-15)'\n ... running command line: \n/srv/bamboo/bamboo-home/temp/JB-GTC-JOB1-15-ScriptBuildTask-7234008340684648905.sh\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=develop\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nbamboo_planRepository_1_branchDisplayName=develop\nbamboo_repository_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GTC-JOB1\nbamboo_shortPlanName=Getdown TEST_RELEASE Channel\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497968_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildNumber=15\nbamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_46497968_git_username=\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown TEST_RELEASE Channel\nbamboo_shortPlanKey=GTC\nbamboo_repository_46497968_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildTimeStamp=2024-11-15T00:00:00.311Z\nbamboo_repository_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_build_commandline_com_atlassian_bamboo_plugins_scripttask_task_builder_script_4=/srv/bamboo/bamboo-home/temp/JB-GTC-JOB1-15-ScriptBuildTask-322967996590185579.sh\nbamboo_repository_git_branch=develop\nbamboo_buildResultKey=JB-GTC-JOB1-15\nbamboo_repository_branch_name=develop\nbamboo_buildPlanName=Jalview Builds - Getdown TEST_RELEASE Channel - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_CHANNEL=TEST-RELEASE\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_7=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC --info eclipse jalviewjsCreateJ2sSettings jalviewjs\nbamboo_repository_46497968_name=Jalview Git\nbamboo_repository_name=Jalview Git\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_2=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GTC clean getdown shadowJar\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=develop\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_branchDisplayName=develop\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=develop\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301535\nbamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle\nbamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=gitv2\nbamboo_repository_46497968_git_branch=develop\nbamboo_repository_46497968_branch_name=develop\nbamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_capability_system_builder_ant_Ant=/usr/share/ant\nbamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven\nbamboo_tmp_directory=/srv/bamboo/bamboo-home/temp\nbamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planKey=JB-GTC\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_repository_46497968_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_8=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=1.8 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC getdown shadowJar\nbamboo_planRepository_1_branchName=develop\n build 15-Nov-2024 00:15:41 /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1/build build 15-Nov-2024 00:15:41 executable_jar/ build 15-Nov-2024 00:15:41 executable_jar/jalview-all-2.11.4.2-test-j11.jar.sha256 build 15-Nov-2024 00:15:41 executable_jar/jalview-all-2.11.4.2-test-j1.8.jar build 15-Nov-2024 00:15:43 executable_jar/jalview-all-2.11.4.2-test-j11.jar build 15-Nov-2024 00:15:45 executable_jar/jalview-all-2.11.4.2-test-j1.8.jar.sha256 simple 15-Nov-2024 00:15:45 Finished task 'Create tar of DEVELOP channel executable jar' with result: Success command 15-Nov-2024 00:15:45 Substituting variable: ${bamboo.CHANNEL} with TEST-RELEASE simple 15-Nov-2024 00:15:45 Starting task 'create tar of JalviewJS site' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script' command 15-Nov-2024 00:15:45 Beginning to execute external process for build 'Jalview Builds - Getdown TEST_RELEASE Channel - Default Job #15 (JB-GTC-JOB1-15)'\n ... running command line: \n/srv/bamboo/bamboo-home/temp/JB-GTC-JOB1-15-ScriptBuildTask-5107822740629160970.sh\n ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=develop\nbamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr\nbamboo_planRepository_1_branchDisplayName=develop\nbamboo_repository_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_resultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planRepository_1_name=Jalview Git\nbamboo_buildKey=JB-GTC-JOB1\nbamboo_shortPlanName=Getdown TEST_RELEASE Channel\nbamboo_planRepository_name=Jalview Git\nbamboo_repository_46497968_revision_number=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildNumber=15\nbamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GTC-JOB1-15\nbamboo_planRepository_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_repository_46497968_git_username=\nbamboo_agentId=196609\nbamboo_planName=Jalview Builds - Getdown TEST_RELEASE Channel\nbamboo_shortPlanKey=GTC\nbamboo_repository_46497968_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_shortJobKey=JOB1\nbamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk\nbamboo_planRepository_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_buildTimeStamp=2024-11-15T00:00:00.311Z\nbamboo_repository_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_build_commandline_com_atlassian_bamboo_plugins_scripttask_task_builder_script_5=/srv/bamboo/bamboo-home/temp/JB-GTC-JOB1-15-ScriptBuildTask-7234008340684648905.sh\nbamboo_build_commandline_com_atlassian_bamboo_plugins_scripttask_task_builder_script_4=/srv/bamboo/bamboo-home/temp/JB-GTC-JOB1-15-ScriptBuildTask-322967996590185579.sh\nbamboo_repository_git_branch=develop\nbamboo_buildResultKey=JB-GTC-JOB1-15\nbamboo_repository_branch_name=develop\nbamboo_buildPlanName=Jalview Builds - Getdown TEST_RELEASE Channel - Default Job\nbamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11\nbamboo_planRepository_1_revision=544bd63f8e2c0122da4f309bdc415162fc1da737\nbamboo_CHANNEL=TEST-RELEASE\nbamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_7=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC --info eclipse jalviewjsCreateJ2sSettings jalviewjs\nbamboo_repository_46497968_name=Jalview Git\nbamboo_repository_name=Jalview Git\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_2=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=11 -Pbamboo_planKey=JB-GTC clean getdown shadowJar\nbamboo_buildFailed=false\nbamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk\nbamboo_planRepository_branch=develop\nbamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609\nbamboo_capability_system_git_executable=/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_planRepository_branchDisplayName=develop\nbamboo_planRepository_1_type=gitv2\nbamboo_planRepository_branchName=develop\nbamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11\nbamboo_capability_system_builderivy_Ivy=/usr\nbamboo_plan_storageTag=plan-46301535\nbamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle\nbamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=gitv2\nbamboo_repository_46497968_git_branch=develop\nbamboo_repository_46497968_branch_name=develop\nbamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_git_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_capability_system_builder_ant_Ant=/usr/share/ant\nbamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven\nbamboo_tmp_directory=/srv/bamboo/bamboo-home/temp\nbamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GTC-JOB1\nbamboo_planKey=JB-GTC\nbamboo_planRepository_1_repositoryUrl=http://source.jalview.org/git/jalview.git\nbamboo_planRepository_username=\nbamboo_repository_46497968_previous_revision_number=416aad339a728afd5ca4c2a558b6a395dd53a3ac\nbamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_8=/home/bamboo/buildtools/gradle/bin/gradle -x test -PCHANNEL=TEST-RELEASE -PJAVA_VERSION=1.8 -Pjalviewjs_eclipse_root=~/buildtools/eclipse/latest -Pbamboo_planKey=JB-GTC getdown shadowJar\nbamboo_planRepository_1_branchName=develop\n build 15-Nov-2024 00:15:45 total 288 build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 _ build 15-Nov-2024 00:15:45 -rw-r--r-- 1 bamboo bamboo 150 Nov 15 00:15 AmbiguityCodes.dat build 15-Nov-2024 00:15:45 -rw-r--r-- 1 bamboo bamboo 474 Nov 15 00:15 authors.props build 15-Nov-2024 00:15:45 -rw-r--r-- 1 bamboo bamboo 905 Nov 15 00:15 channel.props build 15-Nov-2024 00:15:45 drwxr-xr-x 5 bamboo bamboo 4096 Nov 15 00:15 com build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 core build 15-Nov-2024 00:15:45 drwxr-xr-x 3 bamboo bamboo 4096 Nov 15 00:15 darrylbu build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 default_images build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 _ES6 build 15-Nov-2024 00:15:45 drwxr-xr-x 4 bamboo bamboo 4096 Nov 15 00:15 ext build 15-Nov-2024 00:15:45 drwxr-xr-x 3 bamboo bamboo 4096 Nov 15 00:15 fr build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 fts build 15-Nov-2024 00:15:45 -rw-r--r-- 1 bamboo bamboo 15295 Nov 15 00:15 GeneticCodes.dat build 15-Nov-2024 00:15:45 drwxr-xr-x 3 bamboo bamboo 4096 Nov 15 00:15 gnu build 15-Nov-2024 00:15:45 drwxr-xr-x 3 bamboo bamboo 4096 Nov 15 00:15 gov build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 images build 15-Nov-2024 00:15:45 drwxr-xr-x 5 bamboo bamboo 4096 Nov 15 00:15 intervalstore build 15-Nov-2024 00:15:45 drwxr-xr-x 33 bamboo bamboo 4096 Nov 15 00:15 jalview build 15-Nov-2024 00:15:45 drwxr-xr-x 15 bamboo bamboo 4096 Nov 15 00:15 java build 15-Nov-2024 00:15:45 drwxr-xr-x 8 bamboo bamboo 4096 Nov 15 00:15 javajs build 15-Nov-2024 00:15:45 drwxr-xr-x 11 bamboo bamboo 4096 Nov 15 00:15 javax build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 lang build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 mc_view build 15-Nov-2024 00:15:45 drwxr-xr-x 3 bamboo bamboo 4096 Nov 15 00:15 net build 15-Nov-2024 00:15:45 drwxr-xr-x 3 bamboo bamboo 4096 Nov 15 00:15 netscape build 15-Nov-2024 00:15:45 drwxr-xr-x 12 bamboo bamboo 4096 Nov 15 00:15 org build 15-Nov-2024 00:15:45 drwxr-xr-x 4 bamboo bamboo 4096 Nov 15 00:15 resources build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 scoreModel build 15-Nov-2024 00:15:45 -rw-r--r-- 1 bamboo bamboo 144326 Nov 15 00:15 so-xp-simple.obo.zip build 15-Nov-2024 00:15:45 drwxr-xr-x 15 bamboo bamboo 4096 Nov 15 00:15 sun build 15-Nov-2024 00:15:45 drwxr-xr-x 10 bamboo bamboo 4096 Nov 15 00:15 swingjs build 15-Nov-2024 00:15:45 drwxr-xr-x 3 bamboo bamboo 4096 Nov 15 00:15 uk build 15-Nov-2024 00:15:45 drwxr-xr-x 3 bamboo bamboo 4096 Nov 15 00:15 vamsas build 15-Nov-2024 00:15:45 drwxr-xr-x 2 bamboo bamboo 4096 Nov 15 00:15 _WASM build 15-Nov-2024 00:15:45 Cloning into 'jalview-js'... build 15-Nov-2024 00:15:49 jalview-js/ build 15-Nov-2024 00:15:49 jalview-js/com_stevesoft_pat_RegexWriter.html build 15-Nov-2024 00:15:49 jalview-js/fr_orsay_lri_varna_applications_NussinovDesignDemo.html build 15-Nov-2024 00:15:49 jalview-js/applets-nocore.html build 15-Nov-2024 00:15:49 jalview-js/JalviewJS_jvexamplefile.html build 15-Nov-2024 00:15:49 jalview-js/test-raf.txt build 15-Nov-2024 00:15:49 jalview-js/fr_orsay_lri_varna_utils_TranslateFormatRNaseP.html build 15-Nov-2024 00:15:49 jalview-js/fr_orsay_lri_varna_applications_VARNAcmd.html build 15-Nov-2024 00:15:49 jalview-js/___j2sflags.htm build 15-Nov-2024 00:15:49 jalview-js/jalview_bin_JalviewLiteURLRetrieve_applet.html build 15-Nov-2024 00:15:49 jalview-js/jalview_bin_JalviewJS_embedded.html build 15-Nov-2024 00:15:49 jalview-js/fr_orsay_lri_varna_applications_SuperpositionDemo.html build 15-Nov-2024 00:15:49 jalview-js/jalview_bin_JalviewJS2.html build 15-Nov-2024 00:15:49 jalview-js/fr_orsay_lri_varna_applications_VARNAGUI.html build 15-Nov-2024 00:15:49 jalview-js/jalview_bin_Jalview.html build 15-Nov-2024 00:15:49 jalview-js/fr_orsay_lri_varna_views_PrintTest.html build 15-Nov-2024 00:15:49 jalview-js/.git/ build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/ build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/prepare-commit-msg.sample build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/applypatch-msg.sample build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/pre-push.sample build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/pre-applypatch.sample build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/pre-rebase.sample build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/update.sample build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/pre-commit.sample build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/commit-msg.sample build 15-Nov-2024 00:15:49 jalview-js/.git/hooks/post-update.sample build 15-Nov-2024 00:15:49 jalview-js/.git/logs/ build 15-Nov-2024 00:15:49 jalview-js/.git/logs/HEAD build 15-Nov-2024 00:15:49 jalview-js/.git/logs/refs/ build 15-Nov-2024 00:15:49 jalview-js/.git/logs/refs/heads/ build 15-Nov-2024 00:15:49 jalview-js/.git/logs/refs/heads/master build 15-Nov-2024 00:15:49 jalview-js/.git/logs/refs/remotes/ build 15-Nov-2024 00:15:49 jalview-js/.git/logs/refs/remotes/origin/ build 15-Nov-2024 00:15:49 jalview-js/.git/logs/refs/remotes/origin/HEAD build 15-Nov-2024 00:15:49 jalview-js/.git/HEAD build 15-Nov-2024 00:15:49 jalview-js/.git/packed-refs build 15-Nov-2024 00:15:49 jalview-js/.git/config build 15-Nov-2024 00:15:49 jalview-js/.git/info/ build 15-Nov-2024 00:15:49 jalview-js/.git/info/exclude build 15-Nov-2024 00:15:49 jalview-js/.git/index build 15-Nov-2024 00:15:49 jalview-js/.git/refs/ build 15-Nov-2024 00:15:49 jalview-js/.git/refs/tags/ build 15-Nov-2024 00:15:49 jalview-js/.git/refs/heads/ build 15-Nov-2024 00:15:49 jalview-js/.git/refs/heads/master build 15-Nov-2024 00:15:49 jalview-js/.git/refs/remotes/ build 15-Nov-2024 00:15:49 jalview-js/.git/refs/remotes/origin/ build 15-Nov-2024 00:15:49 jalview-js/.git/refs/remotes/origin/HEAD build 15-Nov-2024 00:15:49 jalview-js/.git/description build 15-Nov-2024 00:15:49 jalview-js/.git/branches/ build 15-Nov-2024 00:15:49 jalview-js/.git/objects/ build 15-Nov-2024 00:15:49 jalview-js/.git/objects/pack/ build 15-Nov-2024 00:15:49 jalview-js/.git/objects/pack/pack-dade81f8ecbc7cd4a919ba3663e96241d60a8c74.idx build 15-Nov-2024 00:15:49 jalview-js/.git/objects/pack/pack-dade81f8ecbc7cd4a919ba3663e96241d60a8c74.pack build 15-Nov-2024 00:15:51 jalview-js/.git/objects/info/ build 15-Nov-2024 00:15:51 jalview-js/fr_orsay_lri_varna_VARNA_applet.html build 15-Nov-2024 00:15:51 jalview-js/JalviewJS.html build 15-Nov-2024 00:15:51 jalview-js/jalview_bin_Jalview-stderr.html build 15-Nov-2024 00:15:51 jalview-js/JalviewJS__stevesoft.html build 15-Nov-2024 00:15:51 jalview-js/fr_orsay_lri_varna_applications_VARNAEditor.html build 15-Nov-2024 00:15:51 jalview-js/JalviewJS_jalview.html build 15-Nov-2024 00:15:51 jalview-js/fr_orsay_lri_varna_applications_VARNAConsoleDemo_applet.html build 15-Nov-2024 00:15:51 jalview-js/fr_orsay_lri_varna_models_geom_LinesIntersect.html build 15-Nov-2024 00:15:51 jalview-js/LICENSE build 15-Nov-2024 00:15:51 jalview-js/fr_orsay_lri_varna_views_Imprimer.html build 15-Nov-2024 00:15:51 jalview-js/jalview_bin_Launcher.html build 15-Nov-2024 00:15:51 jalview-js/jalview_bin_JalviewJS_core.html build 15-Nov-2024 00:15:51 jalview-js/README.md build 15-Nov-2024 00:15:51 jalview-js/fr_orsay_lri_varna_applications_NussinovDemo.html build 15-Nov-2024 00:15:51 jalview-js/css/ build 15-Nov-2024 00:15:51 jalview-js/css/ie6.css build 15-Nov-2024 00:15:51 jalview-js/css/reset.css build 15-Nov-2024 00:15:51 jalview-js/css/ie7.css build 15-Nov-2024 00:15:51 jalview-js/css/style.css build 15-Nov-2024 00:15:51 jalview-js/fr_orsay_lri_varna_models_templates_BatchBenchmark.html build 15-Nov-2024 00:15:51 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jalview-js/swingjs/j2s/sun/util/resources/ru/CurrencyNames_ru_RU.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ru/CalendarData_ru.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ru/LocaleNames_ru.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_YE.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_BH.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_QA.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_SD.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_EG.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_MA.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_SA.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_KW.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_IQ.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_LY.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_SY.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_TN.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_AE.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_LB.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_JO.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_DZ.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CurrencyNames_ar_OM.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/LocaleNames_ar.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ar/CalendarData_ar.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ParallelListResourceBundle.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/be/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/be/CalendarData_be.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/be/CurrencyNames_be_BY.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/be/LocaleNames_be.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/CalendarData_zh.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/TimeZoneNames_zh_HK.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/LocaleNames_zh.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/TimeZoneNames_zh_TW.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/LocaleNames_zh_HK.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/CurrencyNames_zh_SG.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/TimeZoneNames_zh_CN.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/CurrencyNames_zh_HK.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/CurrencyNames_zh_CN.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/LocaleNames_zh_SG.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/LocaleNames_zh_TW.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/zh/CurrencyNames_zh_TW.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/cs/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/cs/CalendarData_cs.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/cs/CurrencyNames_cs_CZ.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/cs/LocaleNames_cs.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/OpenListResourceBundle.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/CalendarData.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/LocaleNames_pt.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/CurrencyNames_pt.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/CalendarData_pt_BR.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/TimeZoneNames_pt_BR.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/CalendarData_pt.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/CurrencyNames_pt_BR.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/CalendarData_pt_PT.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/CurrencyNames_pt_PT.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pt/LocaleNames_pt_PT.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pl/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pl/CalendarData_pl.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pl/CurrencyNames_pl_PL.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/pl/LocaleNames_pl.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sv/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sv/CurrencyNames_sv_SE.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sv/LocaleNames_sv.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sv/CurrencyNames_sv.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sv/CalendarData_sv.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sv/TimeZoneNames_sv.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/hu/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/hu/CalendarData_hu.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/hu/CurrencyNames_hu_HU.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/hu/LocaleNames_hu.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/lt/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/lt/CurrencyNames_lt_LT.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/lt/LocaleNames_lt.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/lt/CalendarData_lt.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/bg/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/bg/LocaleNames_bg.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/bg/CurrencyNames_bg_BG.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/bg/CalendarData_bg.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/et/ build 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jalview-js/swingjs/j2s/sun/util/resources/de/CurrencyNames_de_DE.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/de/CurrencyNames_de_CH.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/de/CalendarData_de.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/de/CurrencyNames_de_GR.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/de/LocaleNames_de.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/de/TimeZoneNames_de.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/de/CurrencyNames_de_AT.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/de/CurrencyNames_de.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sk/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sk/LocaleNames_sk.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sk/CurrencyNames_sk_SK.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sk/CalendarData_sk.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sq/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sq/CurrencyNames_sq_AL.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sq/CalendarData_sq.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/sq/LocaleNames_sq.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ja/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ja/TimeZoneNames_ja.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ja/CurrencyNames_ja.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ja/LocaleNames_ja.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ja/CurrencyNames_ja_JP.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ja/CalendarData_ja.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_US.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_EC.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CalendarData_es.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_CU.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_GT.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_CR.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/TimeZoneNames_es.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_NI.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_HN.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_VE.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_PA.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_MX.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_PY.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_UY.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_AR.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_SV.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_PE.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_PR.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_ES.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_DO.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_CO.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/LocaleNames_es.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CalendarData_es_US.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_CL.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/LocaleNames_es_US.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CurrencyNames_es_BO.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/es/CalendarData_es_ES.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ms/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ms/LocaleNames_ms.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ms/CalendarData_ms_MY.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ms/CurrencyNames_ms_MY.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/in/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/in/LocaleNames_in.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/in/CurrencyNames_in_ID.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/in/CalendarData_in_ID.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ga/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ga/CurrencyNames_ga_IE.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/ga/LocaleNames_ga.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/TimeZoneNames.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/LocaleNames.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/fr/ build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/fr/CurrencyNames_fr_CA.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/fr/TimeZoneNames_fr.js build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/fr/CurrencyNames_fr.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/fr/CalendarData_fr.properties build 15-Nov-2024 00:15:51 jalview-js/swingjs/j2s/sun/util/resources/fr/CurrencyNames_fr_FR.properties build 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results summary... simple 15-Nov-2024 00:15:54 Saving build results to disk... simple 15-Nov-2024 00:15:54 Logging substituted variables... simple 15-Nov-2024 00:15:54 Indexing build results... simple 15-Nov-2024 00:15:54 Finished building JB-GTC-JOB1-15.