Build: #10 was successful Child of JB-GDB625-2
Code commits
Jalview Git
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Renia Correya 2940d9c01539dd10962eb201ec7f0cb0eb905be9
Merge develop into feature/JAL-4386_calculate_tree_using_secondary_structure_annotation
Resolved merge conflicts in Messages.properties, GAlignFrame.java, AlignmentViewport.java, and SecondaryStructureConsensusThread.java -
Gitlab User 839b67dfeae7dc17cc31bfd9035f70b22655995b m
JAL-4418 release notes typos
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Gitlab User 0e2404da165d38cb1dd9928c1680273e1f65ad2a m
JAL-4418 bump release date to 18th September 2024
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Gitlab User 75660f8029c41b82da83db312ce4bc422e02f6ca m
JAL-4418 fix up help TOC copypaste error
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Gitlab User 1a41af382c8f65c9eee85b18ab4fb6a6b712b6c3 m
JAL-4418 more documentation tweaks - getting Jen Fleming's name correct
- help/help/html/calculations/calculatedialog.png (version 1a41af382c8f65c9eee85b18ab4fb6a6b712b6c3) (diffs)
- help/help/html/calculations/calculations.html (version 1a41af382c8f65c9eee85b18ab4fb6a6b712b6c3) (diffs)
- help/help/html/calculations/pairwise.html (version 1a41af382c8f65c9eee85b18ab4fb6a6b712b6c3) (diffs)
- help/help/html/calculations/pasimap.html (version 1a41af382c8f65c9eee85b18ab4fb6a6b712b6c3) (diffs)
- help/help/html/calculations/pasimapviewer.png (version 1a41af382c8f65c9eee85b18ab4fb6a6b712b6c3) (diffs)
- help/markdown/releases/release-2_11_4_0.md (version 1a41af382c8f65c9eee85b18ab4fb6a6b712b6c3) (diffs)
- help/markdown/whatsnew/whatsnew-2_11_4_0.md (version 1a41af382c8f65c9eee85b18ab4fb6a6b712b6c3) (diffs)
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Gitlab User 588465477e702bfda9bb4470a6eb0d69f45388d4 m
JAL-4418 JAL-4428 CHANNEL=RELEASE has a different path for the jni jars
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Gitlab User ab3055b2ebd93e8265cb193e7b6a79f326732316 m
JAL-4418 fix link case for linkcheck and window menu documentation update
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Gitlab User 17461ae91a48f78a582ba2566364e7c7d778c87e m
JAL-4159 pasimap viewer image for docs
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Gitlab User d51b30d583717a947882a377671db063d0f22b17 m
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Gitlab User d710fdd71f60fc6a6b3c31d1a3691c581654fd25 m
JAL-4414 JAL-1054 fix irrelevant failing network test for JAL-4418 2.11.4.0 release
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Gitlab User 207feba719c878b68c6a3c656d5a91f282338d49 m
Merge branch 'bug/JAL-1054_broken_test' into develop
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Gitlab User d94e2889036b7ea99c36045cc6d73c4f497139a5 m
JAL-4418 documentation for 4461
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Gitlab User 157385223801346ee6800b5eb1e0cecc33b12701 m
JAL-4418 documentation for ss annotation row preference and auto show (JAL-4425 JAL-4392)
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Gitlab User 29c1f7f296259f96fb0d1341f4381b83b8ea9788 m
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Gitlab User 3b321ee3d6ec9ca63d37a1c5f63b491ec1e365a5 m
Merge branch 'JAL-4442_cant_quit_jalview_on_windows_11' into develop
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Gitlab User cc5c69bfd4a472470f18cf5652805899bc7a3551 m
JAL-4418 release 2.11.4.0 today!
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Gitlab User 20e70a8e299b3531d173285a2bd4de64e1ed9fc4 m
JAL-4418 JAL-4392 show/hide group associated secondary structure consensus and document autohide of secondary structure consensus JAL-4464 also knowndefect for not storing/restoring group associated secondary structure consensus
- help/help/html/calculations/protssconsensus.html (version 20e70a8e299b3531d173285a2bd4de64e1ed9fc4) (diffs)
- help/help/html/menus/alwannotation.html (version 20e70a8e299b3531d173285a2bd4de64e1ed9fc4) (diffs)
- resources/lang/Messages.properties (version 20e70a8e299b3531d173285a2bd4de64e1ed9fc4) (diffs)
- src/jalview/gui/AlignFrame.java (version 20e70a8e299b3531d173285a2bd4de64e1ed9fc4) (diffs)
- src/jalview/jbgui/GAlignFrame.java (version 20e70a8e299b3531d173285a2bd4de64e1ed9fc4) (diffs)
- src/jalview/viewmodel/AlignmentViewport.java (version 20e70a8e299b3531d173285a2bd4de64e1ed9fc4) (diffs)
- src/jalview/workers/SecondaryStructureConsensusThread.java (version 20e70a8e299b3531d173285a2bd4de64e1ed9fc4) (diffs)
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Gitlab User 1b0426d9c3091ecc80c8fdeb582c7945fb16cff1 m
Merge branch 'improvement/JAL-4461_select_format_from_extension' into develop
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Gitlab User e90033c6fcd1a828068690963fbb34e2b8d3631c m
JAL-4392 JAL-4425 commented out code to allow consensus to be hidden automatically when just one sequence is shown
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Gitlab User f041ddeee56a2cb01ebd91b619b5ba9298a5f902 m
Merge branch 'patch/JAL-4392_hide_ssconsensus_if_no_data' into develop
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Gitlab User d764d838a8e1c2ef752825a6e209990f8c9de9f7 m
Merge branch 'bug/JAL-4427_HTML_code_in_sequence_ID_text' into develop
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Gitlab User 9e2fa8ea576657fb12aed3ad639b221c4354b000 m
JAL-4392 autohide the secondary structure consensus annotation by setting AlignmentAnnotation.hasData to false so it is not displayed in view
- src/jalview/analysis/AAFrequency.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/analysis/AlignmentAnnotationUtils.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/analysis/AlignmentUtils.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/analysis/Dna.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/datamodel/AlignmentAnnotation.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/datamodel/Profiles.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/datamodel/ProfilesI.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/gui/AlignmentPanel.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/gui/AnnotationLabels.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/gui/AnnotationPanel.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/renderer/AnnotationRenderer.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/schemes/RNAHelicesColour.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/viewmodel/AlignmentViewport.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/workers/SecondaryStructureConsensusThread.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- src/jalview/workers/StrucConsensusThread.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- test/jalview/datamodel/SequenceGroupTest.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
- test/jalview/renderer/ResidueShaderTest.java (version 9e2fa8ea576657fb12aed3ad639b221c4354b000) (diffs)
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Renia Correya 13190d3a1ce589bfb7bd24e81e2c8660a88ff161 m
JAL-4427 Added test cases and a minor correction
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Gitlab User 41e8b795a5d6f6192ff0610b9b438140b27a1137 m
JAL-4392 don't show SS consensus for DNA alignments
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Ben Soares <b.soares@dundee.ac.uk> 82ffdea414be32b2fee43828940c0af3c0f17801 m
JAL-4461 Move SwingUtils to darrylbu.util.SwingUtils, more appropriate
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Gitlab User 269db78d89891e592bae2c32979d8788e3a66667 m
JAL-4418 release notes for JAL-4461 - nb need to document the new option in the built in help
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Gitlab User 662f5482e6120e839c90bc88f5b7bd3d82eaf42e m
Merge branch 'improvement/JAL-4461_select_format_from_extension' into develop
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Ben Soares <b.soares@dundee.ac.uk> 1a53fb93612a57a847ce8416362a7b00b8d862d7 m
JAL-4461 Tests for JalviewFileChooser.defaultSaveFileFormat() and a slight fix to the code
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Ben Soares <b.soares@dundee.ac.uk> b2ba3f351c30380ae7a0dd204757d7c3b54dad7f m
JAL-4461 Adding in a number of properties that control the default save_as format. See issue for details.
- resources/lang/Messages.properties (version b2ba3f351c30380ae7a0dd204757d7c3b54dad7f) (diffs)
- resources/lang/Messages_es.properties (version b2ba3f351c30380ae7a0dd204757d7c3b54dad7f) (diffs)
- src/jalview/gui/AlignFrame.java (version b2ba3f351c30380ae7a0dd204757d7c3b54dad7f) (diffs)
- src/jalview/gui/Desktop.java (version b2ba3f351c30380ae7a0dd204757d7c3b54dad7f) (diffs)
- src/jalview/gui/Preferences.java (version b2ba3f351c30380ae7a0dd204757d7c3b54dad7f) (diffs)
- src/jalview/io/JalviewFileChooser.java (version b2ba3f351c30380ae7a0dd204757d7c3b54dad7f) (diffs)
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Gitlab User e6d7db13cbe8bc862bd669d138e84d5200673a96
Merge branch 'develop' into feature/JAL-4386_calculate_tree_using_secondary_structure_annotation
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Gitlab User be288e5f7036e8a55928ac18820fc47572d6b0ff m
JAL-4418 sign off JAL-4454 and convert markdown header to html for whatsNew 'experimental'
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Ben Soares <b.soares@dundee.ac.uk> 8ede146f4d51eca8d440e1c1a6fa081029b4cd1c m
JAL-4461 Change JalviewFileFilter to use LinkedHashSet for extensions. Add list of extensions to 'By extensions' tooltip.
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Gitlab User 8e8ae2a3b94b347f7fd6dee43d5952c8d116662f m
Merge branch 'bug/JAL-4427_HTML_code_in_sequence_ID_text' into develop
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Gitlab User 3d816f4854b3283c2764327065f63fc2d46e50ff m
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Gitlab User 47cde5d652a565b540c345825c638fc4c167c4d7 m
Merge branch 'bug/JAL-4427_HTML_code_in_sequence_ID_text' into develop
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Ben Soares <b.soares@dundee.ac.uk> cea846e6b899fb5903011acc67004d73f59c3ba1 m
JAL-4461 Added a dynamic tooltip to give more information when 'By extension' is the selected File Type. Utilising MIT licensed SwingUtils.getDescendantsByClass() to delve into the JFileChooser.
- resources/lang/Messages.properties (version cea846e6b899fb5903011acc67004d73f59c3ba1) (diffs)
- resources/lang/Messages_es.properties (version cea846e6b899fb5903011acc67004d73f59c3ba1) (diffs)
- src/jalview/io/JalviewFileChooser.java (version cea846e6b899fb5903011acc67004d73f59c3ba1) (diffs)
- src/jalview/util/SwingUtils.java (version cea846e6b899fb5903011acc67004d73f59c3ba1) (diffs)
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Gitlab User 67cc778b79c2cca83b6c746bbc52a9d9166743fb m
JAL-4461 fix up formatting and remove old comment
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Gitlab User f9644737ff404d376d442fd21b2748ec9894ea2d m
JAL-4461 after autodetection, update the filechooser dialog and let the user hit OK again to confirm the autodetected format
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Ben Soares <b.soares@dundee.ac.uk> 335d8b6b184c60944edf609bb86e08a12a355a73 m
JAL-4461 Change labelling of All-known-alignment-files to Select-format-from-extension for Save-as file chooser
- resources/lang/Messages.properties (version 335d8b6b184c60944edf609bb86e08a12a355a73) (diffs)
- resources/lang/Messages_es.properties (version 335d8b6b184c60944edf609bb86e08a12a355a73) (diffs)
- src/jalview/gui/AlignFrame.java (version 335d8b6b184c60944edf609bb86e08a12a355a73) (diffs)
- src/jalview/io/JalviewFileChooser.java (version 335d8b6b184c60944edf609bb86e08a12a355a73) (diffs)
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Ben Soares <b.soares@dundee.ac.uk> efcc858be7c5023e58786f8117092b5879e573d7 m
JAL-4460 Don't display the All-known-alignment-files format when a JalviewFileChooser is made with acceptAny set to false (usually a Save-as dialog)
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Gitlab User e87c7127294709e3eb3f6e2ee6582c6a6890d788 m
JAL-4454 make sure 2.11.4.0-test is stripped - *for reals*
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Gitlab User 50cf1b0f1c8ca0f99f35c33fb5f6556a200ef057 m
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Gitlab User d9bc459a175e6fc2d3806adfa71aea35e59027a9 m
Merge branch 'bug/JAL-4460_alignment_save_as_format_not_registering' into develop
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Gitlab User 96e15273c58ad93f09a18d52e7eadcf6901012aa m
JAL-4454 make sure 2.11.4.0-test is stripped
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Ben Soares <b.soares@dundee.ac.uk> 8003658d5abb83eb5d42a1a7b957b0686c852a26 m
JAL-4460 In save as, set format from file extension if a multi-format file filter is selected
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Ben Soares <b.soares@dundee.ac.uk> 983bf691df367eef3dff83ec809bb236f7e021af m
JAL-4460 Don't add .aln for an 'All known formats...' filename
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Ben Soares <b.soares@dundee.ac.uk> 4dd649b088b13205d9eff79b494158d67c63dc16 m
JAL-4460 Update currentFileFormat /after/ new format selection
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Gitlab User 4d60d8b917a3cfe7202c9ff2e301eeb5e14ff1be m
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Gitlab User 4da518baaf1ad5a8e19243e8fe98cbb162d797f9 m
Merge branch 'patch/JAL-4428_osx_codesigning_scripts' into develop
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Gitlab User e428c76d94fdfb3c8d3783b62c14ef555e693adc m
JAL-4428 codesign jnilibs
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Gitlab User 8b9105836b3e771c2bad52b567a8cbdad2404cfa m
JAL-4428 informational output (possibly needs verbosity control)
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Gitlab User 6ca157ff447d81c2f38fc17b51cffa484afed9ba m
JAL-4428 giving another XXX
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Gitlab User 7513043ef659cee485e54ec0939c64a36cd031cc m
JAL-4428 add some XXXX for mktemp -t
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Ben Soares <b.soares@dundee.ac.uk> 619551ed8a68b6f9d5cedd08cc67945150cc9d9d m
JAL-4428 Fixes to -z's and mktemp
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Gitlab User 2ab8dec60f0beca5e33ba4c9f348c45227d0ffd1 m
Merge branch 'patch/JAL-4428_osx_codesigning_scripts' into develop
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Gitlab User 08ed00519c5f652f91e8403ae1ea2790a479394f m
JAL-4454 allow channels to pick up most recent 'whatsNew' and releasenotes for their associated version
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Gitlab User 84393a0dcdd5056f3b75b28ecce838c409d9b6ff m
JAL-4418 initial pasimap documentation and updated release notes for recent merges
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Gitlab User bcd1fb33af892cbbaea5162e7a9da57e385d9e8a m
JAL-4418 postpone release to Thursday 12th Sept 2024
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Renia Correya c52a3a6cdf7d0e05ff3ca5e11ab60e95038c73fe
Merge branch 'develop' into feature/JAL-4386_calculate_tree_using_secondary_structure_annotation
# Conflicts:
# src/jalview/analysis/AAFrequency.java
# src/jalview/analysis/AlignmentUtils.java
# src/jalview/analysis/scoremodels/SecondaryStructureDistanceModel.java
# src/jalview/api/AlignViewportI.java
# src/jalview/datamodel/Profile.java
# src/jalview/datamodel/SequenceGroup.java
# src/jalview/gui/AlignFrame.java
# src/jalview/gui/AlignViewport.java
# src/jalview/gui/PopupMenu.java
# src/jalview/jbgui/GAlignFrame.java
# src/jalview/project/Jalview2XML.java
# src/jalview/renderer/AnnotationRenderer.java
# src/jalview/renderer/ResidueShader.java
# src/jalview/renderer/ResidueShaderI.java
# src/jalview/util/Constants.java
# src/jalview/viewmodel/AlignmentViewport.java
# src/jalview/workers/SecondaryStructureConsensusThread.java
# test/jalview/analysis/AlignmentUtilsTests.java -
Gitlab User 8a347b5268314778b49c80737058679cb3ec4827 m
JAL-4386 remove magic string in registerScoreModel...
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Gitlab User e7bfd7141229e93961d676431233487da4e7789b m
JAL-4418 fix linkCheck
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Gitlab User e937933118a48e607805629f9581c6fd6d274a33 m
JAL-4418 release 10th September
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Gitlab User e386ab351a5fae6088dc95e3be00cc70c17d8cee m
Merge branch 'documentation/JAL-4418_2_11_4_0_docs' into develop
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Gitlab User 3296f8cb9d9f4c9f01f197e971ff625cd3be3ed7 m
Merge branch 'feature/JAL-4446_cancellable_pasimap_etal' into develop
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Gitlab User 69e9cb3c4b9297c19411876e32604822f7f909de m
JAL-4418 first pass at updating docs with pasimap, ssconservation, etc
- help/help/help.jhm (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/helpTOC.xml (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/calculations/calculations.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/calculations/pasimap.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/calculations/protssconsensus.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/calculations/tree.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/menus/alignmentMenu.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/menus/alwannotation.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/menus/alwannotationpanel.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/menus/alwcalculate.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/menus/alwcolour.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/menus/alwformat.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/menus/desktopMenu.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/help/html/menus/wsmenu.html (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
- help/markdown/whatsnew/whatsnew-2_11_4_0.md (version 69e9cb3c4b9297c19411876e32604822f7f909de) (diffs)
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Ben Soares <b.soares@dundee.ac.uk> 08a024937b60499b53a60024f9b40402f623ec8d m
JAL-1054 Add option to always follow redirects and not just http->https ones in jalview.util.HttpUtils. Fix tests for HttpUtils.followConnection,openConnection,openStream by checking with the followAnyway flag true and false.
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Renia Correya 621f426fa1cd84aa41ab94581fecf0b4b659da50 m
Fix for JAL-4427
Sequence ID text showing html code - protein disorder. -
Renia Correya 391348cbefa931101392b98c60d0494f3f382ef3
JAL-4436 Colour by secondary structure conservation
Corrected the labels as secondary structure conservation increment.
Added a check for secondary structure in Colour by Above identity
threshold feature. -
Gitlab User f40edd5d97571d331bd03489ef67858bbb2595bf m
JAL-4446 improved reporting of progress, and transition between cancelable and non-cancelable phases of pasimap calculation
- src/jalview/analysis/PaSiMap.java (version f40edd5d97571d331bd03489ef67858bbb2595bf) (diffs)
- src/jalview/gui/PaSiMapPanel.java (version f40edd5d97571d331bd03489ef67858bbb2595bf) (diffs)
- src/jalview/gui/PairwiseAlignPanel.java (version f40edd5d97571d331bd03489ef67858bbb2595bf) (diffs)
- src/jalview/gui/ProgressBar.java (version f40edd5d97571d331bd03489ef67858bbb2595bf) (diffs)
- src/jalview/viewmodel/PaSiMapModel.java (version f40edd5d97571d331bd03489ef67858bbb2595bf) (diffs)
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Gitlab User 30c13c1638967753f7b1f9c880a92cc7308b1278 m
JAL-4446 refactor progress listener handler code for reuse
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Gitlab User 6ec1491ad65b1a0d63eff8277677a8ecd5ab354d m
Merge branch 'develop' into feature/JAL-4446_cancellable_pasimap_etal
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Gitlab User 356477aa523d0422c42e34c60cb98c9249ac4ed3 m
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Gitlab User 6a6a1654226d5c75406c3bcd95f646d0d9996f61 m
Merge branch 'feature/JAL-3631_allow_jalview_to_work_from_user-space_directory' into develop
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Ben Soares <b.soares@dundee.ac.uk> b9a24a3b7bacdc1f653b5de8b696e0892fa8f5c5 m
JAL-3631 Allow use of ~/ for unixBinDir specified in response.varfile
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Ben Soares <b.soares@dundee.ac.uk> 0f709498e152ee504198a378472a348a1d91590d m
JAL-3631 Allow unixBinDir (where a symbolic link gets made) to be set in response.varfile. If it's not set or empty then the usual (dynamic) default will be ascertained. Disallow reading in certain variables from the response.varfile that would just mess up the installation if changed.
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Ben Soares <b.soares@dundee.ac.uk> db28770c295fa1f8d4d2ae16931ee0bc2bfeb46e m
JAL-3631 Configuration tweaks if using the response.varfile
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Ben Soares <b.soares@dundee.ac.uk> acb90325e4fde76fbe1d67b80f451a76353908bd m
JAL-3631 Adjustments to allow setting the Advanced options in the response.varfile. Also big improvement on setting sys.fileAssociation.launchers automatically so only sys.fileAssociation.extensions needs to be set in a response.varfile.
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Ben Soares <b.soares@dundee.ac.uk> ac69832b3a877a4b43b9a75a1f1f9b31cb55abee m
JAL-3631 Fix interpolatove quotation marks in grep in jalview.sh. Fix some folder name trailing slash checks in macos_install_jalview.sh, add ditto -v and more informative output.
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Ben Soares <b.soares@dundee.ac.uk> b28a43feb85d380c9912cf67a80761f2ccd7fa9b m
JAL-3631 Fix interpolative quotation marks in new grep
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Gitlab User 88be27652649d3404aa05326e6a54fc221b65ab5 m
Merge branch 'jims/JAL-4420_review_redo' into develop
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Ben Soares <b.soares@dundee.ac.uk> 87ab843ae2e9afa891535b885d49d16ce6d1fce5 m
JAL-3631 When appdir/jre can't be found, look for the installer.appdir found in installer.properties (if it exists) and use jre dir in installer.appdir
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Ben Soares <b.soares@dundee.ac.uk> 451d5c6724dd5ed4c42f8546553f97e2e9b686da m
JAL-3631 Create an installer.properties file in the userappdir
- getdown/lib/getdown-core.jar (version 451d5c6724dd5ed4c42f8546553f97e2e9b686da) (diffs)
- getdown/lib/getdown-launcher-local.jar (version 451d5c6724dd5ed4c42f8546553f97e2e9b686da) (diffs)
- getdown/lib/getdown-launcher.jar (version 451d5c6724dd5ed4c42f8546553f97e2e9b686da) (diffs)
- getdown/src/getdown/core/src/main/java/com/threerings/getdown/data/Application.java (version 451d5c6724dd5ed4c42f8546553f97e2e9b686da) (diffs)
- getdown/src/getdown/core/src/main/java/com/threerings/getdown/data/EnvConfig.java (version 451d5c6724dd5ed4c42f8546553f97e2e9b686da) (diffs)
- j11lib/getdown-core.jar (version 451d5c6724dd5ed4c42f8546553f97e2e9b686da) (diffs)
- j8lib/getdown-core.jar (version 451d5c6724dd5ed4c42f8546553f97e2e9b686da) (diffs)
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Gitlab User 85e30a861f26369f9be8cffa4a1345c79092a895 m
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Gitlab User 1b68541c7d4b464f8165ca3dbdc5916ef6cf8c19 m
JAL-4420 new drag'n'drop behaviour is now an 'Experimental Feature'
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Gitlab User ee4305f7cad84f8c254c8709b9da8621a2f18872 m
JAL-4420 report exceptions raised during a drop rather than swallowing them
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Ben Soares <b.soares@dundee.ac.uk> 88ec5ec9e697a1a5ee9e2c3ede3e248e1a6d918e m
JAL-4442 Removed debugging variables and a stray 'wait' boolean which is not used
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Gitlab User 6ce6f76a29779263ce810e0875b8050d25cbd0bb m
JAL-4418 release notes for JAL-4398 and rejigged order a bit
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Gitlab User 7e3271b6887c1674671dfc13725df09251177946 m
Merge branch 'bug/JAL-4398_Window_menu_font_rendering' into develop
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Gitlab User 06bf5d0d823d53c6b6337cdf0ebb2c8897597b45 m
Merge branch 'develop' into JAL-4442_cant_quit_jalview_on_windows_11
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Gitlab User be1250ac8d031ee2501458377a6672b5dd4a4941 m
Merge branch 'develop' into bug/JAL-4449_ensembl_sequence_retrieval_broken
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Gitlab User ab788613300c36da80e7d37f946d699b19d562dd m
JAL-4449 signed off and also updated Ensembl REST API version after fixing the EnsemblGene BRAF query test: JAL-3018
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Gitlab User a7218e71d8f55d564051673bc4ba8519315220aa m
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Ben Soares <b.soares@dundee.ac.uk> d575022e7f98391bca61ec8e70d01b7b61d5efd5 m
JAL-4449 Changed HttpUtils.followConnection(conn0) to return conn0 unused when there is not a redirect from http to https, otherwise to return a new unused connection directly to the new https URL
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Gitlab User cec9228733938df22e2332849ce72dccaec3c89c m
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Gitlab User 894e28b96fbe246ffeba3f834f2b30f06a4ec0f8 m
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Gitlab User f599ef3e45d8bf3c247023f4156348a9d36a2d99 m
Merge branch 'develop' into JAL-4442_cant_quit_jalview_on_windows_11
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Gitlab User 85d6c4e85b067e72af161cbe584ad8f247565055 m
JAL-4442 reprioritise QuitHandler debug output to either trace, debug or warn
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Gitlab User b81cfff0a0c0a8ce6b1618ac9db65e553369eaef m
JAL-4442 reprioritise JvOptionPane debug output to either trace, debug or warn
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Ben Soares <b.soares@dundee.ac.uk> 518abfdf0b3d2028617b781219086ad932c6f40a m
JAL-4428 README.md file for sign_and_stapled_dmg.sh
- utils/osx_signing/README (version 518abfdf0b3d2028617b781219086ad932c6f40a) (diffs)
- utils/osx_signing/README.md (version 518abfdf0b3d2028617b781219086ad932c6f40a) (diffs)
- utils/osx_signing/README.old (version 518abfdf0b3d2028617b781219086ad932c6f40a) (diffs)
- utils/osx_signing/staple_dmg.sh (version 518abfdf0b3d2028617b781219086ad932c6f40a) (diffs)
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Gitlab User e69db6fc850b0e89328bb2dbc3d371930fa6c595 m
JAL-789 limit applicable score models to substitution matrix based ones