Build: #5 was successful Changes by Gitlab User and Ben Soares <b.soares@dundee.ac.uk>
Code commits
Jalview Gitlab
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Gitlab User ba2177bba3a1e2417aec91f5283bcd923c650917
Merge branch 'bug/JAL-4107_jalviewjs_fixes_on_2_12_branch' into development/JAL-4107_merge_2115_212
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Gitlab User b6ff7e553d3ba8b32e1d2650df7860706b2a37d5
JAL-4107 reinstate Console output of DESKTOP CREATED so jalviewjsHeadlessTest passes
- src/jalview/gui/Desktop.java (version b6ff7e553d3ba8b32e1d2650df7860706b2a37d5)
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Ben Soares <b.soares@dundee.ac.uk> 5857fe763e55a89397fc3bb157f282726c22b1a7
JAL-4107 Use Jalview.instanceExsits() in the test too
- test/jalview/bin/CommandsTest.java (version 5857fe763e55a89397fc3bb157f282726c22b1a7)
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Ben Soares <b.soares@dundee.ac.uk> b80719bcafaf18f88875dd6956bb3bd47ff21bed
JAL-4107 Add an instanceExists() non-instantiating check to ApplicationSingletonProvider and use for Jalview class. Change all tests for Jalview.getInstance() == null to Jalview.instanceExists(). Some Eclipse formatting has also happened in AlignExportOptions.java and Console.java.
- src/jalview/gui/AlignExportOptions.java (version b80719bcafaf18f88875dd6956bb3bd47ff21bed)
- src/jalview/bin/Jalview.java (version b80719bcafaf18f88875dd6956bb3bd47ff21bed)
- src/jalview/bin/Console.java (version b80719bcafaf18f88875dd6956bb3bd47ff21bed)
- src/jalview/bin/ApplicationSingletonProvider.java (version b80719bcafaf18f88875dd6956bb3bd47ff21bed)
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Gitlab User d9442bb9082abf38356357af249d104ac0bba899
Merge branch 'releases/Release_2_11_5_Branch' into development/JAL-4107_merge_2115_212
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Gitlab User df978487510f6f706c25ecc0edc196237307a4cf
Merge branch 'development/Release_2_11_5_Branch' into development/JAL-4107_merge_2115_212
Conflicts:
src/jalview/gui/Desktop.java -
Gitlab User 0c995e4afe6a0d8be99965cc3bdd76fdf0d476a2 m
Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch
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Gitlab User 5a352531cd86cea0301a03c102d40c14c5bdc234 m
report JAL-3250 as known issue
- help/markdown/releases/release-2_11_5_1.md (version 5a352531cd86cea0301a03c102d40c14c5bdc234)
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Gitlab User 9e8107e58052731091bf993126f425f16f32ae10 m
Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch
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Gitlab User b00f7c47ccd3e44f5d4402f33e29b4b95c337419 m
JAL-4559 release notes
- help/markdown/releases/release-2_11_5_1.md (version b00f7c47ccd3e44f5d4402f33e29b4b95c337419)
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Gitlab User c8b0cd46a86ee8d04e7495890fd1154abe04b0a9 m
Merge branch 'bug/JAL-4559_old_cli_args_in_JVL_docs' into development/Release_2_11_5_Branch
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Ben Soares <b.soares@dundee.ac.uk> fa776299afd684ddf2c7a6c0a6fa55ffe39ab85b m
Modernised CLI arguments in jvlfiles.html help file.
- help/help/html/features/jvlfiles.html (version fa776299afd684ddf2c7a6c0a6fa55ffe39ab85b)
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Ben Soares <b.soares@dundee.ac.uk> 39c7453fadcc29164b49c703f6c22068cace576c
JAL-4107 Consistent use of isJS
- src/jalview/util/Platform.java (version 39c7453fadcc29164b49c703f6c22068cace576c)
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Gitlab User 822d842fa864860106ef2378f37825d9447cb615 m
Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch
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Gitlab User 3ad0f0a7896b330c0e763c467d1076bede27b59a m
JAL-4617 update release notes
- help/markdown/whatsnew/whatsnew-2_11_5_1.md (version 3ad0f0a7896b330c0e763c467d1076bede27b59a)
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Gitlab User a3717c01ff25f6dd430c1f09e1703931eb52d3e3 m
JAL-4617 update release notes for JAL-4631
- help/markdown/releases/release-2_11_5_1.md (version a3717c01ff25f6dd430c1f09e1703931eb52d3e3)
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Gitlab User 24af8a2c8c5057d72d0bc61b7ab9083d6dde58de m
Merge branch 'patch/JAL-4606_again_and_again' into development/Release_2_11_5_Branch
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Gitlab User 93fb58cbe20343f44ca1822ba33a9713771dea50 m
JAL-4638 patch out original normalise patch for JAL-4606
- src/jalview/structure/StructureSelectionManager.java (version 93fb58cbe20343f44ca1822ba33a9713771dea50)
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Gitlab User 23d77417fa19d86491740b13213c4e5f6fe8c8ca m
JAL-4606 JAL-4638 - try to report exceptions and 'ignore' them rather than wait for them to be resolved.
- src/jalview/structures/models/AAStructureBindingModel.java (version 23d77417fa19d86491740b13213c4e5f6fe8c8ca)
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Gitlab User de432b741cf810c75c9c231c9b4367d7fa1c25f4 m
JAL-4606 more traces to debug why timeout happens when loading multiple alphafolds
- src/jalview/ws/dbsources/EBIAlfaFold.java (version de432b741cf810c75c9c231c9b4367d7fa1c25f4)
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Gitlab User 4274626161176356567f10cde7a170c86140a69a m
JAL-4631 don't look for an internet connection unless we are told to !
- utils/HelpLinksChecker.java (version 4274626161176356567f10cde7a170c86140a69a)
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Gitlab User c54f2e7db459080486c10c0ba5d6d7e0b438a760 m
JAL-4606 fix a slew of concurrency oddness, unexpected nulls and report when exceptions appear
- src/jalview/structures/models/AAStructureBindingModel.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
- src/jalview/gui/Desktop.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
- src/jalview/gui/AppJmol.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
- src/jalview/ext/jmol/JmolCommands.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
- src/jalview/ext/jmol/JalviewJmolBinding.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
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Gitlab User 2e38b63969bc263f8dbd71114f4b86df78af3363 m
JAL-4626 avoid race condition when pinging the AFDB API causing multiple pings
- src/jalview/ws/dbsources/EBIAlfaFold.java (version 2e38b63969bc263f8dbd71114f4b86df78af3363)
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Gitlab User 70ce6a8d689fdaa7d2fda171e8785cd256d8d25e m
JAL-4606 new test case for path equivalence and normalisation of all '\' to '/'
- test/jalview/ext/jmol/JmolCommandsTest.java (version 70ce6a8d689fdaa7d2fda171e8785cd256d8d25e)
- src/jalview/ext/jmol/JmolCommands.java (version 70ce6a8d689fdaa7d2fda171e8785cd256d8d25e)
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Ben Soares <b.soares@dundee.ac.uk> e0875267ed4b699db969bf10b30bafe83a1cbd7d
JAL-4107 Copy in badly merged jalview.util.Platform.readInfoProperties(String,Properties) method. Some eclipse formatting in other methods.
- src/jalview/util/Platform.java (version e0875267ed4b699db969bf10b30bafe83a1cbd7d)
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Gitlab User c5863647f151f0f4e2100adc983690b4e60bbfbf m
Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch
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Gitlab User a66e20be839021308667d6b9cfd5110ede25ac1a m
Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch
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Gitlab User 867df43eea5552fcff91729cc98aa6ab6d1f21f3 m
Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch
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Gitlab User 86d2c844db19c23c7922b5fd103807d0d2469a66 m
Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch
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Gitlab User 7cc6b9e721a23f8fc07ee1c1b72ffb120d04ce2c m
Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch