Build #7

Jalview Test RELEASE Channel build

Build: #7 was successful Changes by Gitlab User

Code commits

Jalview Gitlab

  • Gitlab User

    Gitlab User 822d842fa864860106ef2378f37825d9447cb615

    Merge branch 'development/Release_2_11_5_Branch' into releases/Release_2_11_5_Branch

  • Gitlab User

    Gitlab User 3ad0f0a7896b330c0e763c467d1076bede27b59a m

    JAL-4617 update release notes

    • help/markdown/whatsnew/whatsnew-2_11_5_1.md (version 3ad0f0a7896b330c0e763c467d1076bede27b59a)
  • Gitlab User

    Gitlab User a3717c01ff25f6dd430c1f09e1703931eb52d3e3 m

    JAL-4617 update release notes for JAL-4631

    • help/markdown/releases/release-2_11_5_1.md (version a3717c01ff25f6dd430c1f09e1703931eb52d3e3)
  • Gitlab User

    Gitlab User 24af8a2c8c5057d72d0bc61b7ab9083d6dde58de m

    Merge branch 'patch/JAL-4606_again_and_again' into development/Release_2_11_5_Branch

  • Gitlab User

    Gitlab User 93fb58cbe20343f44ca1822ba33a9713771dea50 m

    JAL-4638 patch out original normalise patch for JAL-4606

    • src/jalview/structure/StructureSelectionManager.java (version 93fb58cbe20343f44ca1822ba33a9713771dea50)
  • Gitlab User

    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)
  • Gitlab User

    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)
  • Gitlab User

    Gitlab User 4274626161176356567f10cde7a170c86140a69a m

    JAL-4631 don't look for an internet connection unless we are told to !

    • utils/HelpLinksChecker.java (version 4274626161176356567f10cde7a170c86140a69a)
  • Gitlab User

    Gitlab User c54f2e7db459080486c10c0ba5d6d7e0b438a760 m

    JAL-4606 fix a slew of concurrency oddness, unexpected nulls and report when exceptions appear

    • src/jalview/ext/jmol/JalviewJmolBinding.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
    • src/jalview/ext/jmol/JmolCommands.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
    • src/jalview/gui/AppJmol.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
    • src/jalview/gui/Desktop.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
    • src/jalview/structures/models/AAStructureBindingModel.java (version c54f2e7db459080486c10c0ba5d6d7e0b438a760)
  • Gitlab User

    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)
  • Gitlab User

    Gitlab User 70ce6a8d689fdaa7d2fda171e8785cd256d8d25e m

    JAL-4606 new test case for path equivalence and normalisation of all '\' to '/'

    • src/jalview/ext/jmol/JmolCommands.java (version 70ce6a8d689fdaa7d2fda171e8785cd256d8d25e)
    • test/jalview/ext/jmol/JmolCommandsTest.java (version 70ce6a8d689fdaa7d2fda171e8785cd256d8d25e)
  • Gitlab User

    Gitlab User 4d0c90d7e29c7842bd1b903abe465f22d9853a4f m

    JAL-4603 added addional patch and relocated the test data

    • examples/PLAKN_serpin.jvp (version 4d0c90d7e29c7842bd1b903abe465f22d9853a4f)
    • examples/testdata/PLAKN_serpin.jvp (version 4d0c90d7e29c7842bd1b903abe465f22d9853a4f)
    • test/jalview/gui/AlignmentPanelTest.java (version 4d0c90d7e29c7842bd1b903abe465f22d9853a4f)
  • Gitlab User

    Gitlab User c5ebb0734693e5ea2016da4033f5cbcd568ea03c m

    Merge branch 'bug/JAL-4603_Export_files_missing_part_of_sequence' into development/Release_2_11_5_Branch

  • Renia Correya

    Renia Correya db868848b73d9a08f5ee1b08a269436a41323446 m

    JAL-4603 Fixed failed tests in SeqCanvasTest

    • test/jalview/gui/SeqCanvasTest.java (version db868848b73d9a08f5ee1b08a269436a41323446)
  • Gitlab User

    Gitlab User 6343fb679e94dec0d94366f19ed793109bc79aed m

    JAL-4603 work around for different return value. still failing due to PA trying to get a nonexistant field

    • test/jalview/gui/SeqCanvasTest.java (version 6343fb679e94dec0d94366f19ed793109bc79aed)
  • Gitlab User

    Gitlab User 26c9a083284a5baa6d35cf7e4ea85ff4fb2e773a m

    Merge branch 'development/Release_2_11_5_Branch' into bug/JAL-4603_Export_files_missing_part_of_sequence

  • Renia Correya

    Renia Correya 12f0a1a619e171b14011ac9c4664fa6ef68ff2c3 m

    JAL-4603 Changed calculation of wrappedVisibleWidths local

    • src/jalview/gui/SeqCanvas.java (version 12f0a1a619e171b14011ac9c4664fa6ef68ff2c3)
  • Renia Correya

    Renia Correya 0ef8e143ad499423fa6af90141b658fb19c976ba m

    JAL-4603 Adding test file in examples

    • examples/PLAKN_serpin.jvp (version 0ef8e143ad499423fa6af90141b658fb19c976ba)
    • test/jalview/gui/AlignmentPanelTest.java (version 0ef8e143ad499423fa6af90141b658fb19c976ba)
  • Renia Correya

    Renia Correya c3045fc6634b128b595ae5f168d533d3cb89addc m

    JAL-4603 Fix for export files missing part of sequence

    • src/jalview/gui/AlignmentPanel.java (version c3045fc6634b128b595ae5f168d533d3cb89addc)
    • test/jalview/gui/AlignmentPanelTest.java (version c3045fc6634b128b595ae5f168d533d3cb89addc)