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.
Append git.hash and git.branch to RELEASE file stored in tarball. When compiling, if not in git repo use git.branch and git.hash from RELEASE file.

JAL-3973 This fixes the gradle build when not in a git repo. (Part 1 of the issue)

JAL-3746 bump release date to 10th March - after UoD network maintenance

JAL-3796 include entitlements when codesigning for macOS - doesn't actually help :(

JAL-3796 commit jni lib in Jmol library that is signed with Jalview's OSX cert

JAL-3746 JAL-3841 fix README typo

JAL-3746 more docs tweaking and release notes

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    /help/help/html/features/preferences.html
Merge branch 'spike/try_spotless_JAL-3438' into develop

JAL-3746 apply copyright to tests

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    /test/jalview/bin/HiDPISettingTest1.java
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JAL-3746 apply copyright to source

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    /src/jalview/ext/pymol/PymolCommands.java
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    /src/jalview/ext/pymol/PymolManager.java
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    /src/jalview/ext/rbvi/chimera/ChimeraXManager.java
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    /src/jalview/fts/api/StructureFTSRestClientI.java
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    /src/jalview/fts/service/threedbeacons/.gitignore
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    /src/jalview/gui/ChimeraXViewFrame.java
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JAL-3438 spotless for 2.11.2.0

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    /src/com/stevesoft/pat/ChangeRule.java
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    /src/com/stevesoft/pat/Ctrl.java
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    /src/com/stevesoft/pat/FastBracket.java
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    /src/com/stevesoft/pat/Regex.java
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    /src/com/stevesoft/pat/RegexWriter.java
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JAL-3746 JAL-3841 new README and finalising 2.11.2.0 release notes

JAL-3108 updated Ensembl client and model species names

JAL-3746 new release date for 2.11.2

JAL-3746 JAL-3103 java.awt.Desktop.showURL method mechanism release notes

Merge branch 'bug/JAL-3103_browser_launcher_problems_macos_and_linux' into develop

JAL-3103 updated help doc to remove default browser choice

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    /help/help/html/features/preferences.html
JAL-3103 Removed code and unused widgets for defaultBrowser

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    /src/jalview/jbgui/GPreferences.java
JAL-3103 Remove BrowserLauncher2 and use Desktop.browse(url) with wrapper methods

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    /resources/lang/Messages_es.properties
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    /src/jalview/util/BrowserLauncher.java
JAL-3103 add BrowserLauncher2 LGPLv2.1 to THIRDPARTYLIBS

JAL-3103 Put jalview.jar first in getdown for .properties files. Remove now-not-needed exception handling from jalview code for openURL. Change Default browser input to JComboBox populated by BrowserLauncher2

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    /resources/lang/Messages_es.properties
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    /src/jalview/gui/StructureViewerBase.java
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    /src/jalview/jbgui/GPreferences.java
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    /src/jalview/util/BrowserLauncher.java
JAL-3647 release notes for JAL-1842 JAL-3509 JAL-3881, JAL-3884 JAL-3632 JAL-3633 and report JAL-3764 as a known issue

JAL-3685 - two single quotes when replacements are present in i18n message

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    /resources/lang/Messages.properties
JAL-3103 Switched to (a wrapper around) BrowserLauncher2

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    /j11lib/BrowserLauncher2-1_3.jar
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    /j8lib/BrowserLauncher2-1_3.jar
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    /resources/lang/Messages_es.properties
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    /src/jalview/gui/Preferences.java
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    /src/jalview/util/BrowserLauncher.java
JAL-3647 release notes for hdpi/laf scaling JAL-3608 JAL-3609 JAL-3552

JAL-3746 structure mapping preference docs for JAL-3817

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    /help/help/html/features/preferences.html