jalview

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make AlignFrame the parent of FeatureEditor dialog, and have parent Component request focus after...
make AlignFrame the parent of FeatureEditor dialog, and have parent Component request focus after...
JAL-3975 forced re-focus to alignframe after Create Sequence Feature dialog.
JAL-3975 forced re-focus to alignframe after Create Sequence Feature dialog.
Looks good. I've bumped the version to 1.8.3-1.2.12 and recompiled jars.

Looks good. I've bumped the version to 1.8.3-1.2.12 and recompiled jars.

JAL-3962 Added jre/bin and dist folders to the native library path to try and fix the awt.dll problem

JAL-3130 updated download_jres.sh

JAL-3691 patch toUpper/toLower to use Locale.ROOT for 2.11.2 src
JAL-3691 patch toUpper/toLower to use Locale.ROOT for 2.11.2 src
JAL-3746 more what’s new and release notes

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    /help/help/html/releases.html
JAL-3503 2.11.2.0 release notes and docs

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    /help/help/html/features/preferences.html
JAL-3746 JAL-3551 update pymol docs and what’s new text

JAL-3746 document -no-annotation cli arg

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    /help/help/html/features/clarguments.html
Merge branch 'improvement/JAL-3830_install4j9_macos_setup_application' of http://source.jalview.org/git/jalview into improvement/JAL-3830_install4j9_macos_setup_application

JAL-3830 temporarily disable the setup screen for OSX dmgs until we can properly document its use

JAL-3796 additional steps for notarization

Merge branch 'develop' into improvement/JAL-3830_install4j9_macos_setup_application

JAL-3551 patch superpose test for additional undo dis/enable commands

JAL-3823 JAL-3830 update gradle plugin for install4j to 9.0.6

Merge branch 'develop' into improvement/JAL-3830_install4j9_macos_setup_application

JAL-3959 add key retrieval urls that support CORS needed by JalviewJS

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    /src/jalview/ws/ebi/EBIFetchClient.java
JAL-3746 more release notes and docs: JAL-3863 JAL-3745

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    /help/help/html/features/structurechooser.html
JAL-3746 release notes.. in progress

JAL-3551 - wrap pair_fit with undo_disable and undo_enable

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    /src/jalview/ext/pymol/PymolCommands.java
JAL-3837 GPL license on splashscreen (finally !) and added link to discourse.jalview.org to replace mailing list

JAL-3949 report Pymol XMLRPC port via log.info

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    /src/jalview/ext/pymol/PymolManager.java
JAL-1761 backbone type parameter for configuring which atoms are used for superposition of structures

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    /src/jalview/ext/jmol/JmolCommands.java
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    /src/jalview/ext/pymol/PymolCommands.java
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    /src/jalview/ext/rbvi/chimera/ChimeraCommands.java
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    /test/jalview/ext/jmol/JmolCommandsTest.java
JAL-1761 need to pass molecule type when generating superposition commands

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    /test/jalview/ext/jmol/JmolCommandsTest.java
JAL-3551 patch test for altloc handling atom spec in superposition code

JAL-1761 need to pass molecule type when generating superposition commands

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    /src/jalview/ext/jmol/JmolCommands.java
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    /src/jalview/ext/pymol/PymolCommands.java