jalview

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JAL-3487 HTML label not wrapping

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    /swingjs/ver/3.1.1/SwingJS-site.zip
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    /swingjs/ver/3.1.1/net.sf.j2s.core.3.1.1.jar
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    /swingjs/ver/3.2.1/SwingJS-site.zip
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    /swingjs/ver/3.2.1/net.sf.j2s.core_3.2.1.jar
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    /swingjs/ver/3.2.2/SwingJS-site.zip
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    /swingjs/ver/3.2.2/net.sf.j2s.core.jar
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    /swingjs/ver/3.2.3/SwingJS-site.zip
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    /swingjs/ver/3.2.3/net.sf.j2s.core.jar
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    /swingjs/ver/3.2.4/SwingJS-site.zip
  1. … 6 more files in changeset.
JAL-3487 simplified, streamlined Splash screen; just two isJS():

- no need for minimization logo on Help frame in JavaScript

- still using JLabel, not JTextPane (for now)

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    /src/jalview/gui/SplashScreen.java
JAL-3420 multiple file extensions for the same mime-type now work in unix installer

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    /utils/install4j/file_associations_auto-install4j8.xml
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    /utils/install4j/file_associations_template-install4j8.xml
JAL-3449 install4j version, install4j template version, getdown version now all being reported in Javliew console

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    /getdown/lib/getdown-launcher-local.jar
JAL-819 fix broken initConsensus

JAL-3477 merging in 3477

JAL-3393 Improved background image for DMG finder window, and associated files for creating it

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    /utils/getdown/jalview_logo_background_fade-640x480.xcf
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    /utils/install4j/DMG_creation_README.md
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    /utils/install4j/jalview_dmg_background-old.png
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    /utils/install4j/jalview_dmg_background_large.png
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    /utils/install4j/jalview_dmg_background_layers.pdf
JAL-3449 adding an installer template version. Really an md5 and a commit hash

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    /utils/install4j/DMG_creation_README.md
JAL-819 menu options to reinstate missing auto-calculated annotation

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    /src/jalview/api/AlignViewportI.java
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    /src/jalview/gui/AlignFrame.java
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    /src/jalview/gui/AnnotationLabels.java
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    /src/jalview/jbgui/GAlignFrame.java
JAL-3449 added an install4j compiler var

JAL-3449 JAL-3394 merged on install4j8 template

JAL-3484 unit test for restoring two views' annotation ordering

Merge branch 'improvement/JAL-3393_DMG_Finder_window_improvements' into improvement/JAL-3449_add_install4j_installer_getdown_versions_to_jalview_console.2

Merging in JAL-3393, better Finder window for DMG

JAL-3485 constants for CDNA_CONSENSUS, STRUCTURE_CONSENSUS added

JAL-3484 temporary override of autocalc preferences for project load

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    /src/jalview/project/Jalview2XML.java
JAL-3485 (enum) constants for Auto-annotation label and preference key

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    /src/jalview/gui/AnnotationLabels.java
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    /src/jalview/gui/Preferences.java
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    /src/jalview/project/Jalview2XML.java
JAL-3449 Using .gitignore from Jalview-JS/develop

JAL-3449 Using tidied build.gradle and gradle.properties from Jalview-JS/develop

JAL-3081 test and fix for preserve annotation order on New View

JAL-3449 Tidied up install4j settings

Merge branch 'Jalview-JS/develop' into merge/Ben_trying_out_JSdevelop_with_develop

attempt to get the very refactored/improved build.gradle and gradle.properties from Jalview-JS/develop back to develop

JAL-3477 A bit of refactoring for the better

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    /getdown/lib/getdown-launcher-local.jar
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    /src/jalview/bin/MemoryPercent.java
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    /src/jalview/bin/MemorySetting.java
JAL-3210 cache getdown config, remove jvmmem options for better defaults

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    /getdown/lib/getdown-launcher-local.jar
JAL-3210 removing overly complicated logging. Settling for System.out.println and System.err.println for MemorySetting output

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    /getdown/lib/getdown-launcher-local.jar
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    /src/jalview/bin/MemoryPercent.java
JAL-3210 Added in the build*xml files for helper tasks

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    /utils/jalviewjs/buildxml/build-libjs.xml
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    /utils/jalviewjs/buildxml/build-site.xml
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    /utils/jalviewjs/buildxml/build.Bob-Windows.xml
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    /utils/jalviewjs/buildxml/build.xml
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    /utils/jalviewjs/buildxml/buildcore.xml
JAL-3210 use JSUtil methods getFileBytes, getApplet

JAL-3210 removed 'all' core due to problems

JAL-3484 tests for load project with changed autocalc Preferences

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    /test/jalview/project/Jalview2xmlTests.java
JAL-3477 New jvmmemmax config option in getdown and getdown config. Set to 32G cap.

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    /getdown/lib/getdown-launcher-local.jar
JAL-3477 New sensible default decisions on memory, and new jvmmemmax setting for setting absolute memory level

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    /src/jalview/bin/MemoryPercent.java
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    /src/jalview/bin/MemorySetting.java
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    /test/jalview/bin/MemorySettingTest.java
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    /utils/testnglibs/classgraph-4.1.6.jar