Build: #66 failed
Job: Clover and Tests failed
Build log
The build generated 324 lines of output. Download or view full build log
| 30-Jun-2026 18:54:23 | Build Jalview Builds - Gradle Develop Build - epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs - Clover and Tests #66 (JB-GDB753-JOB1-66) started building on agent Default Agent |
| 30-Jun-2026 18:54:23 | |
| 30-Jun-2026 18:54:23 | Build working directory is /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1 |
| 30-Jun-2026 18:54:23 | Executing build Jalview Builds - Gradle Develop Build - epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs - Clover and Tests #66 (JB-GDB753-JOB1-66) |
| 30-Jun-2026 18:54:23 | Starting task 'Checkout Default Repository' of type 'com.atlassian.bamboo.plugins.vcs:task.vcs.checkout' |
| 30-Jun-2026 18:54:23 | Checking out into /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1 |
| 30-Jun-2026 18:54:23 | Updating source code to revision: 38da210e113735a373aca5029fbd650cce248261 |
| 30-Jun-2026 18:54:23 | Fetching 'refs/heads/epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs' from 'https://gitlab.jalview.org/jalview/jalview.git'. |
| 30-Jun-2026 18:54:23 | Checking out revision 38da210e113735a373aca5029fbd650cce248261. |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4530_applescript_to_detect_Applications_symlink does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Not_Shown_in_v2_12 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Preferences does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4623_JAL-4624_PCA_for_SS does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4624_JAL-4623_Mul_SS_in_PCA does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4647_replace_deprecated_constructors-Release_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/citation.cff does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/development/JAL-4576_ligysis does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4366_JAL-4386_JAL-4435_3di_msafromstructure_msacomp does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4478_multimer_pae_import does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL_4542_highlight_selected_annot_labels_tree_nodes does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4587_colour_group_annotation does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4560_handle_relative_paths_in_jvl_files does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4620_faster_sim_matrices does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/main does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-3848_slivka_java_client_update_06d3659 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4107_singleThreadTests does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4410_multimers_from_3dbeacons does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4414_for_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4478_r212_initialpatch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4590_remove_isBlank_use does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4644_add_resources_for_testng does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4658_quick_patch_for_clustering_histograms_of_counts does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4672_for_2115_pdbe_query does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/releases/Release_2_11_4_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/saved/JAL-4320_JAL-4644_refactor_directory_structure-with_nearly_working_openclover does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/JAL-4576_ligysis_exploration does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/na_hack_JAL-4673 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/test/JAL-4603_test_for_JAL-4603_in_progress does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Archived_Release_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_10_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_5_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_6_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4530_applescript_to_detect_Applications_symlink does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Not_Shown_in_v2_12 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Preferences does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4623_JAL-4624_PCA_for_SS does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4624_JAL-4623_Mul_SS_in_PCA does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4647_replace_deprecated_constructors-Release_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/citation.cff does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/development/JAL-4576_ligysis does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4366_JAL-4386_JAL-4435_3di_msafromstructure_msacomp does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4478_multimer_pae_import does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL_4542_highlight_selected_annot_labels_tree_nodes does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4587_colour_group_annotation does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4560_handle_relative_paths_in_jvl_files does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4620_faster_sim_matrices does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/main does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-3848_slivka_java_client_update_06d3659 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4107_singleThreadTests does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4410_multimers_from_3dbeacons does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4414_for_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4478_r212_initialpatch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4590_remove_isBlank_use does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4644_add_resources_for_testng does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4658_quick_patch_for_clustering_histograms_of_counts does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4672_for_2115_pdbe_query does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/releases/Release_2_11_4_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/saved/JAL-4320_JAL-4644_refactor_directory_structure-with_nearly_working_openclover does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/JAL-4576_ligysis_exploration does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/na_hack_JAL-4673 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/test/JAL-4603_test_for_JAL-4603_in_progress does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Archived_Release_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_10_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_5_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_6_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4530_applescript_to_detect_Applications_symlink does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Not_Shown_in_v2_12 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Preferences does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4623_JAL-4624_PCA_for_SS does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4624_JAL-4623_Mul_SS_in_PCA does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4647_replace_deprecated_constructors-Release_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/citation.cff does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/development/JAL-4576_ligysis does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4366_JAL-4386_JAL-4435_3di_msafromstructure_msacomp does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4478_multimer_pae_import does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL_4542_highlight_selected_annot_labels_tree_nodes does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4587_colour_group_annotation does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4560_handle_relative_paths_in_jvl_files does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4620_faster_sim_matrices does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/main does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-3848_slivka_java_client_update_06d3659 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4107_singleThreadTests does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4410_multimers_from_3dbeacons does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4414_for_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4478_r212_initialpatch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4590_remove_isBlank_use does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4644_add_resources_for_testng does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4658_quick_patch_for_clustering_histograms_of_counts does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4672_for_2115_pdbe_query does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/releases/Release_2_11_4_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/saved/JAL-4320_JAL-4644_refactor_directory_structure-with_nearly_working_openclover does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/JAL-4576_ligysis_exploration does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/na_hack_JAL-4673 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/test/JAL-4603_test_for_JAL-4603_in_progress does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Archived_Release_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_10_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_5_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_6_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4530_applescript_to_detect_Applications_symlink does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Not_Shown_in_v2_12 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Preferences does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4623_JAL-4624_PCA_for_SS does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4624_JAL-4623_Mul_SS_in_PCA does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4647_replace_deprecated_constructors-Release_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/citation.cff does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/development/JAL-4576_ligysis does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4366_JAL-4386_JAL-4435_3di_msafromstructure_msacomp does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4478_multimer_pae_import does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL_4542_highlight_selected_annot_labels_tree_nodes does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4587_colour_group_annotation does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4560_handle_relative_paths_in_jvl_files does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4620_faster_sim_matrices does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/main does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-3848_slivka_java_client_update_06d3659 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4107_singleThreadTests does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4410_multimers_from_3dbeacons does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4414_for_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4478_r212_initialpatch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4590_remove_isBlank_use does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4644_add_resources_for_testng does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4658_quick_patch_for_clustering_histograms_of_counts does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4672_for_2115_pdbe_query does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/releases/Release_2_11_4_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/saved/JAL-4320_JAL-4644_refactor_directory_structure-with_nearly_working_openclover does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/JAL-4576_ligysis_exploration does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/na_hack_JAL-4673 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/test/JAL-4603_test_for_JAL-4603_in_progress does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Archived_Release_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_10_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_5_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_6_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | From file:///srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache/62ce6c67e11163a982952b2962d6d7b0872110f0 |
| 30-Jun-2026 18:54:23 | d52cb82..38da210 epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs -> origin/epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4530_applescript_to_detect_Applications_symlink does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Not_Shown_in_v2_12 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4611_SSConsensus_Preferences does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4623_JAL-4624_PCA_for_SS does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4624_JAL-4623_Mul_SS_in_PCA does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/bug/JAL-4647_replace_deprecated_constructors-Release_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/citation.cff does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/development/JAL-4576_ligysis does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4366_JAL-4386_JAL-4435_3di_msafromstructure_msacomp does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL-4478_multimer_pae_import does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/feature/JAL_4542_highlight_selected_annot_labels_tree_nodes does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4219_extended_fasta_rna_ss does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/features/JAL-4587_colour_group_annotation does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4560_handle_relative_paths_in_jvl_files does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/improvement/JAL-4620_faster_sim_matrices does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/main does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-3848_slivka_java_client_update_06d3659 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4107_singleThreadTests does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4410_multimers_from_3dbeacons does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4414_for_2_11_5_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4478_r212_initialpatch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4590_remove_isBlank_use does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4644_add_resources_for_testng does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4658_quick_patch_for_clustering_histograms_of_counts does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/patch/JAL-4672_for_2115_pdbe_query does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/releases/Release_2_11_4_Branch does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/saved/JAL-4320_JAL-4644_refactor_directory_structure-with_nearly_working_openclover does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/JAL-4576_ligysis_exploration does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/spike/na_hack_JAL-4673 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/remotes/origin/test/JAL-4603_test_for_JAL-4603_in_progress does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Archived_Release_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Jalview_2_4_0b2 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_10_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_2_7 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_11_4_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_4_0 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_5_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | error: refs/tags/Release_2_6_1 does not point to a valid object! |
| 30-Jun-2026 18:54:23 | Already on 'epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs' |
| 30-Jun-2026 18:54:23 | Your branch is behind 'origin/epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs' by 3 commits, and can be fast-forwarded. |
| 30-Jun-2026 18:54:23 | (use "git pull" to update your local branch) |
| 30-Jun-2026 18:54:23 | HEAD is now at 38da210 JAL-4320 First pass at BUILDING.md doc |
| 30-Jun-2026 18:54:23 | Updated source code to revision: 38da210e113735a373aca5029fbd650cce248261 |
| 30-Jun-2026 18:54:23 | Finished task 'Checkout Default Repository' with result: Success |
| 30-Jun-2026 18:54:23 | Running pre-build action: VCS Version Collector |
| 30-Jun-2026 18:54:23 | Running pre-build action: Artifactory Release Staging |
| 30-Jun-2026 18:54:23 | Starting task 'Run tests with openclover under gradle' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' |
| 30-Jun-2026 18:54:23 | Bamboo Artifactory Plugin version: 2.6.2 |
| 30-Jun-2026 18:54:23 | Beginning to execute external process for build 'Jalview Builds - Gradle Develop Build - epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs - Clover and Tests #66 (JB-GDB753-JOB1-66)' ... running command line: /home/bamboo/buildtools/x11-gradle/bin/gradle -Pclover=true -PJAVA_VERSION=11 -Ptestng_excluded_groups=Not-bamboo clean cleanTest test ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1 ... using extra environment variables: bamboo_planRepository_1_branch=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr CATALINA_PID=/home/bamboo/latest/work/bamboo.pid bamboo_repository_48169065_branch_name=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_planRepository_1_branchDisplayName=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_repository_revision_number=38da210e113735a373aca5029fbd650cce248261 bamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDB753-JOB1-66 JAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048 bamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1 bamboo_planRepository_1_name=Jalview Gitlab bamboo_buildKey=JB-GDB753-JOB1 bamboo_shortPlanName=epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_planRepository_name=Jalview Gitlab LOGNAME=bamboo bamboo_buildNumber=66 PWD=/ bamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse bamboo_shortJobName=Clover and Tests bamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GDB753-JOB1-66 bamboo_planRepository_repositoryUrl=https://gitlab.jalview.org/jalview/jalview.git SHELL=/bin/bash bamboo_agentId=196609 bamboo_planName=Jalview Builds - Gradle Develop Build - epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_repository_48169065_name=Jalview Gitlab bamboo_repository_48169065_previous_revision_number=d52cb82e19b154449c252ddf9bdae63a2a4759da bamboo_shortPlanKey=GDB753 bamboo_repository_48169065_git_username= bamboo_shortJobKey=JOB1 bamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk bamboo_planRepository_revision=38da210e113735a373aca5029fbd650cce248261 bamboo_buildTimeStamp=2026-06-30T18:54:23.158+01:00 bamboo_repository_previous_revision_number=d52cb82e19b154449c252ddf9bdae63a2a4759da bamboo_planRepository_previousRevision=d52cb82e19b154449c252ddf9bdae63a2a4759da bamboo_repository_48169065_git_repositoryUrl=https://gitlab.jalview.org/jalview/jalview.git bamboo_repository_git_branch=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_buildResultKey=JB-GDB753-JOB1-66 bamboo_repository_branch_name=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_buildPlanName=Jalview Builds - Gradle Develop Build - epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs - Clover and Tests bamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11 bamboo_repository_48169065_revision_number=38da210e113735a373aca5029fbd650cce248261 bamboo_repository_48169065_git_branch=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_planRepository_1_revision=38da210e113735a373aca5029fbd650cce248261 SHLVL=1 bamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant bamboo_repository_name=Jalview Gitlab JAVA_HOME=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/ LANG=en_GB.UTF-8 bamboo_buildFailed=false bamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk bamboo_planRepository_branch=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609 bamboo_capability_system_git_executable=/bin/git bamboo_repository_git_username= bamboo_planRepository_1_previousRevision=d52cb82e19b154449c252ddf9bdae63a2a4759da bamboo_planRepository_branchDisplayName=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_planRepository_1_type=gitv2 bamboo_planRepository_branchName=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs _=/usr/bin/java bamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11 bamboo_capability_system_builderivy_Ivy=/usr bamboo_plan_storageTag=plan-47972561 bamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle bamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache bamboo_planRepository_1_username= bamboo_planRepository_type=gitv2 USER=bamboo bamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache bamboo_repository_git_repositoryUrl=https://gitlab.jalview.org/jalview/jalview.git bamboo_capability_system_builder_ant_Ant=/usr/share/ant bamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven bamboo_tmp_directory=/srv/bamboo/bamboo-home/temp bamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1 bamboo_planKey=JB-GDB753 bamboo_planRepository_1_repositoryUrl=https://gitlab.jalview.org/jalview/jalview.git bamboo_planRepository_username= HOME=/home/bamboo bamboo_planRepository_1_branchName=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin |
| 30-Jun-2026 18:54:23 | 2414 |
| 30-Jun-2026 18:54:24 | |
| 30-Jun-2026 18:54:24 | FAILURE: Build failed with an exception. |
| 30-Jun-2026 18:54:24 | |
| 30-Jun-2026 18:54:24 | * What went wrong: |
| 30-Jun-2026 18:54:24 | Could not resolve all files for configuration 'classpath'. |
| 30-Jun-2026 18:54:24 | > Could not resolve org.gradle.toolchains:foojay-resolver:1.0.0. |
| 30-Jun-2026 18:54:24 | Required by: |
| 30-Jun-2026 18:54:24 | unspecified:unspecified:unspecified > org.gradle.toolchains.foojay-resolver-convention:org.gradle.toolchains.foojay-resolver-convention.gradle.plugin:1.0.0 |
| 30-Jun-2026 18:54:24 | > No matching variant of org.gradle.toolchains:foojay-resolver:1.0.0 was found. The consumer was configured to find a runtime of a library compatible with Java 11, packaged as a jar, and its dependencies declared externally, as well as attribute 'org.gradle.plugin.api-version' with value '7.4.2' but: |
| 30-Jun-2026 18:54:24 | - Variant 'javadocElements' capability org.gradle.toolchains:foojay-resolver:1.0.0 declares a runtime of a component, and its dependencies declared externally: |
| 30-Jun-2026 18:54:24 | - Incompatible because this component declares documentation and the consumer needed a library |
| 30-Jun-2026 18:54:24 | - Other compatible attributes: |
| 30-Jun-2026 18:54:24 | - Doesn't say anything about its target Java version (required compatibility with Java 11) |
| 30-Jun-2026 18:54:24 | - Doesn't say anything about its elements (required them packaged as a jar) |
| 30-Jun-2026 18:54:24 | - Doesn't say anything about org.gradle.plugin.api-version (required '7.4.2') |
| 30-Jun-2026 18:54:24 | - Variant 'shadowRuntimeElements' capability org.gradle.toolchains:foojay-resolver:1.0.0 declares a runtime of a library, packaged as a jar, and its dependencies repackaged (shadow jar): |
| 30-Jun-2026 18:54:24 | - Incompatible because this component declares a component compatible with Java 17, as well as attribute 'org.gradle.plugin.api-version' with value '7.6' and the consumer needed a component compatible with Java 11, as well as attribute 'org.gradle.plugin.api-version' with value '7.4.2' |
| 30-Jun-2026 18:54:24 | - Variant 'sourcesElements' capability org.gradle.toolchains:foojay-resolver:1.0.0 declares a runtime of a component, and its dependencies declared externally: |
| 30-Jun-2026 18:54:24 | - Incompatible because this component declares documentation and the consumer needed a library |
| 30-Jun-2026 18:54:24 | - Other compatible attributes: |
| 30-Jun-2026 18:54:24 | - Doesn't say anything about its target Java version (required compatibility with Java 11) |
| 30-Jun-2026 18:54:24 | - Doesn't say anything about its elements (required them packaged as a jar) |
| 30-Jun-2026 18:54:24 | - Doesn't say anything about org.gradle.plugin.api-version (required '7.4.2') |
| 30-Jun-2026 18:54:24 | |
| 30-Jun-2026 18:54:24 | * Try: |
| 30-Jun-2026 18:54:24 | > Run with --stacktrace option to get the stack trace. |
| 30-Jun-2026 18:54:24 | > Run with --info or --debug option to get more log output. |
| 30-Jun-2026 18:54:24 | > Run with --scan to get full insights. |
| 30-Jun-2026 18:54:24 | |
| 30-Jun-2026 18:54:24 | * Get more help at https://help.gradle.org |
| 30-Jun-2026 18:54:24 | |
| 30-Jun-2026 18:54:24 | BUILD FAILED in 608ms |
| 30-Jun-2026 18:54:24 | |
| 30-Jun-2026 18:54:24 | Failing task since return code of [/home/bamboo/buildtools/x11-gradle/bin/gradle -Pclover=true -PJAVA_VERSION=11 -Ptestng_excluded_groups=Not-bamboo clean cleanTest test] was 1 while expected 0 |
| 30-Jun-2026 18:54:24 | Finished task 'Run tests with openclover under gradle' with result: Failed |
| 30-Jun-2026 18:54:24 | Starting task 'Clover Report' of type 'org.jfrog.bamboo.bamboo-artifactory-plugin:artifactoryGradleTask' |
| 30-Jun-2026 18:54:24 | Bamboo Artifactory Plugin version: 2.6.2 |
| 30-Jun-2026 18:54:24 | Beginning to execute external process for build 'Jalview Builds - Gradle Develop Build - epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs - Clover and Tests #66 (JB-GDB753-JOB1-66)' ... running command line: /home/bamboo/buildtools/x11-gradle/bin/gradle --no-daemon -Pclover=true -PJAVA_VERSION=11 cloverReport ... in: /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1 ... using extra environment variables: bamboo_planRepository_1_branch=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_capability_system_builder_maven_Artifactory_Maven_3=/usr CATALINA_PID=/home/bamboo/latest/work/bamboo.pid bamboo_repository_48169065_branch_name=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_planRepository_1_branchDisplayName=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_repository_revision_number=38da210e113735a373aca5029fbd650cce248261 bamboo_resultsUrl=https://builds.jalview.org/browse/JB-GDB753-JOB1-66 JAVA_OPTS=-Xms512m -Xmx1024m -Dbamboo.home=/srv/bamboo/bamboo-home -Djdk.tls.ephemeralDHKeySize=2048 bamboo_build_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1 bamboo_planRepository_1_name=Jalview Gitlab bamboo_buildKey=JB-GDB753-JOB1 bamboo_shortPlanName=epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_planRepository_name=Jalview Gitlab LOGNAME=bamboo bamboo_buildNumber=66 PWD=/ bamboo_capability_system_builder_command_Eclipse_2019_09=/home/bamboo/buildtools/eclipse/jee-2019-09/eclipse/eclipse bamboo_shortJobName=Clover and Tests bamboo_buildResultsUrl=https://builds.jalview.org/browse/JB-GDB753-JOB1-66 bamboo_planRepository_repositoryUrl=https://gitlab.jalview.org/jalview/jalview.git SHELL=/bin/bash bamboo_agentId=196609 bamboo_planName=Jalview Builds - Gradle Develop Build - epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_repository_48169065_name=Jalview Gitlab bamboo_repository_48169065_previous_revision_number=d52cb82e19b154449c252ddf9bdae63a2a4759da bamboo_shortPlanKey=GDB753 bamboo_repository_48169065_git_username= bamboo_shortJobKey=JOB1 bamboo_capability_system_jdk_OpenJDK_11=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk bamboo_planRepository_revision=38da210e113735a373aca5029fbd650cce248261 bamboo_buildTimeStamp=2026-06-30T18:54:23.158+01:00 bamboo_repository_previous_revision_number=d52cb82e19b154449c252ddf9bdae63a2a4759da bamboo_planRepository_previousRevision=d52cb82e19b154449c252ddf9bdae63a2a4759da bamboo_repository_48169065_git_repositoryUrl=https://gitlab.jalview.org/jalview/jalview.git bamboo_repository_git_branch=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_buildResultKey=JB-GDB753-JOB1-66 bamboo_repository_branch_name=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_buildPlanName=Jalview Builds - Gradle Develop Build - epic-JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs - Clover and Tests bamboo_capability_system_builder_ant_j11_Ant=/home/bamboo/buildtools/j11/ant-j11 bamboo_repository_48169065_revision_number=38da210e113735a373aca5029fbd650cce248261 bamboo_repository_48169065_git_branch=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_planRepository_1_revision=38da210e113735a373aca5029fbd650cce248261 SHLVL=1 bamboo_capability_system_builder_ant_x11_Ant=/home/bamboo/buildtools/x11-ant bamboo_repository_name=Jalview Gitlab bamboo_build_commandline_org_jfrog_bamboo_bamboo_artifactory_plugin_artifactoryGradleTask_2=/home/bamboo/buildtools/x11-gradle/bin/gradle -Pclover=true -PJAVA_VERSION=11 -Ptestng_excluded_groups=Not-bamboo clean cleanTest test JAVA_HOME=/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk/ LANG=en_GB.UTF-8 bamboo_buildFailed=true bamboo_capability_system_jdk_OpenJDK_8=/home/bamboo/buildtools/jdk/jdk-8-linux-x64/jdk bamboo_planRepository_branch=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_agentWorkingDirectory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609 bamboo_jobFailed=true bamboo_capability_system_git_executable=/bin/git bamboo_repository_git_username= bamboo_planRepository_1_previousRevision=d52cb82e19b154449c252ddf9bdae63a2a4759da bamboo_planRepository_branchDisplayName=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs bamboo_planRepository_1_type=gitv2 bamboo_planRepository_branchName=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs _=/usr/bin/java bamboo_capability_system_builder_ant_j11_x11_Ant=/home/bamboo/buildtools/j11/x11-ant-j11 bamboo_capability_system_builderivy_Ivy=/usr bamboo_plan_storageTag=plan-47972561 bamboo_capability_system_builder_gradle_Gradle=/home/bamboo/buildtools/gradle bamboo_hg_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_hg-repositories-cache bamboo_planRepository_1_username= bamboo_planRepository_type=gitv2 USER=bamboo bamboo_git_cache_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/_git-repositories-cache bamboo_repository_git_repositoryUrl=https://gitlab.jalview.org/jalview/jalview.git bamboo_capability_system_builder_ant_Ant=/usr/share/ant bamboo_capability_system_builder_mvn3_Maven_3=/usr/share/maven bamboo_tmp_directory=/srv/bamboo/bamboo-home/temp bamboo_working_directory=/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1 bamboo_planKey=JB-GDB753 bamboo_planRepository_1_repositoryUrl=https://gitlab.jalview.org/jalview/jalview.git bamboo_planRepository_username= HOME=/home/bamboo bamboo_planRepository_1_branchName=epic/JAL-4320_JAL-4671_swingjs_gradle_plugin_for_jalviewjs PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin |
| 30-Jun-2026 18:54:24 | 2414 |
| 30-Jun-2026 18:54:27 | |
| 30-Jun-2026 18:54:27 | FAILURE: Build failed with an exception. |
| 30-Jun-2026 18:54:27 | |
| 30-Jun-2026 18:54:27 | * What went wrong: |
| 30-Jun-2026 18:54:27 | Could not resolve all files for configuration 'classpath'. |
| 30-Jun-2026 18:54:27 | > Could not resolve org.gradle.toolchains:foojay-resolver:1.0.0. |
| 30-Jun-2026 18:54:27 | Required by: |
| 30-Jun-2026 18:54:27 | unspecified:unspecified:unspecified > org.gradle.toolchains.foojay-resolver-convention:org.gradle.toolchains.foojay-resolver-convention.gradle.plugin:1.0.0 |
| 30-Jun-2026 18:54:27 | > No matching variant of org.gradle.toolchains:foojay-resolver:1.0.0 was found. The consumer was configured to find a runtime of a library compatible with Java 11, packaged as a jar, and its dependencies declared externally, as well as attribute 'org.gradle.plugin.api-version' with value '7.4.2' but: |
| 30-Jun-2026 18:54:27 | - Variant 'javadocElements' capability org.gradle.toolchains:foojay-resolver:1.0.0 declares a runtime of a component, and its dependencies declared externally: |
| 30-Jun-2026 18:54:27 | - Incompatible because this component declares documentation and the consumer needed a library |
| 30-Jun-2026 18:54:27 | - Other compatible attributes: |
| 30-Jun-2026 18:54:27 | - Doesn't say anything about its target Java version (required compatibility with Java 11) |
| 30-Jun-2026 18:54:27 | - Doesn't say anything about its elements (required them packaged as a jar) |
| 30-Jun-2026 18:54:27 | - Doesn't say anything about org.gradle.plugin.api-version (required '7.4.2') |
| 30-Jun-2026 18:54:27 | - Variant 'shadowRuntimeElements' capability org.gradle.toolchains:foojay-resolver:1.0.0 declares a runtime of a library, packaged as a jar, and its dependencies repackaged (shadow jar): |
| 30-Jun-2026 18:54:27 | - Incompatible because this component declares a component compatible with Java 17, as well as attribute 'org.gradle.plugin.api-version' with value '7.6' and the consumer needed a component compatible with Java 11, as well as attribute 'org.gradle.plugin.api-version' with value '7.4.2' |
| 30-Jun-2026 18:54:27 | - Variant 'sourcesElements' capability org.gradle.toolchains:foojay-resolver:1.0.0 declares a runtime of a component, and its dependencies declared externally: |
| 30-Jun-2026 18:54:27 | - Incompatible because this component declares documentation and the consumer needed a library |
| 30-Jun-2026 18:54:27 | - Other compatible attributes: |
| 30-Jun-2026 18:54:27 | - Doesn't say anything about its target Java version (required compatibility with Java 11) |
| 30-Jun-2026 18:54:27 | - Doesn't say anything about its elements (required them packaged as a jar) |
| 30-Jun-2026 18:54:27 | - Doesn't say anything about org.gradle.plugin.api-version (required '7.4.2') |
| 30-Jun-2026 18:54:27 | |
| 30-Jun-2026 18:54:27 | * Try: |
| 30-Jun-2026 18:54:27 | > Run with --stacktrace option to get the stack trace. |
| 30-Jun-2026 18:54:27 | > Run with --info or --debug option to get more log output. |
| 30-Jun-2026 18:54:27 | > Run with --scan to get full insights. |
| 30-Jun-2026 18:54:27 | |
| 30-Jun-2026 18:54:27 | * Get more help at https://help.gradle.org |
| 30-Jun-2026 18:54:27 | |
| 30-Jun-2026 18:54:27 | BUILD FAILED in 2s |
| 30-Jun-2026 18:54:27 | |
| 30-Jun-2026 18:54:27 | Failing task since return code of [/home/bamboo/buildtools/x11-gradle/bin/gradle --no-daemon -Pclover=true -PJAVA_VERSION=11 cloverReport] was 1 while expected 0 |
| 30-Jun-2026 18:54:27 | Finished task 'Clover Report' with result: Failed |
| 30-Jun-2026 18:54:27 | Starting task 'TestNG Parser' of type 'com.atlassian.bamboo.plugins.testresultparser:task.testresultparser.testng' |
| 30-Jun-2026 18:54:27 | Parsing test results under /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1... |
| 30-Jun-2026 18:54:27 | Failing task since test cases were expected but none were found. |
| 30-Jun-2026 18:54:27 | Finished task 'TestNG Parser' with result: Failed |
| 30-Jun-2026 18:54:27 | Running post build plugin 'NCover Results Collector' |
| 30-Jun-2026 18:54:27 | Running post build plugin 'Artifact Copier' |
| 30-Jun-2026 18:54:27 | Publishing an artifact: Clover Report (System) |
| 30-Jun-2026 18:54:27 | Unable to publish artifact [Clover Report (System)]: the source directory /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1/build/reports/clover does not exist. |
| 30-Jun-2026 18:54:27 | The artifact hasn't been successfully published after 3.003 ms |
| 30-Jun-2026 18:54:27 | Publishing an artifact: TestNG report |
| 30-Jun-2026 18:54:27 | Unable to publish artifact [TestNG report]: the source directory /srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1/build/reports/tests/test does not exist. |
| 30-Jun-2026 18:54:27 | The artifact hasn't been successfully published after 57.67 μs |
| 30-Jun-2026 18:54:27 | Running post build plugin 'Artifactory Release Management Staging' |
| 30-Jun-2026 18:54:27 | Running post build plugin 'Artifactory Build Info Copier' |
| 30-Jun-2026 18:54:27 | Running post build plugin 'Artifactory Gradle Properties Info Copier' |
| 30-Jun-2026 18:54:27 | Running post build plugin 'npm Cache Cleanup' |
| 30-Jun-2026 18:54:27 | Running post build plugin 'Clover Results Collector' |
| 30-Jun-2026 18:54:27 | Failed to execute plugin 'Clover Results Collector' with error: No file matches the specified pattern:build/reports/clover/clover.xml in [/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB753-JOB1] |
| 30-Jun-2026 18:54:27 | Running post build plugin 'Docker Container Cleanup' |
| 30-Jun-2026 18:54:27 | Finalising the build... |
| 30-Jun-2026 18:54:27 | Stopping timer. |
| 30-Jun-2026 18:54:27 | Build JB-GDB753-JOB1-66 completed. |
| 30-Jun-2026 18:54:27 | Running on server: post build plugin 'NCover Results Collector' |
| 30-Jun-2026 18:54:27 | Running on server: post build plugin 'Build Hanging Detection Configuration' |
| 30-Jun-2026 18:54:27 | Running on server: post build plugin 'Clover Delta Calculator' |
| 30-Jun-2026 18:54:27 | Running on server: post build plugin 'Maven Dependencies Postprocessor' |
| 30-Jun-2026 18:54:27 | All post build plugins have finished |
| 30-Jun-2026 18:54:27 | Generating build results summary... |
| 30-Jun-2026 18:54:27 | Saving build results to disk... |
| 30-Jun-2026 18:54:27 | Logging substituted variables... |
| 30-Jun-2026 18:54:27 | Indexing build results... |
| 30-Jun-2026 18:54:27 | Finished building JB-GDB753-JOB1-66. |