jalview

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JAL-3577 Changed Windows internal ID to a new value which is backward compatible with the 2.11.0 installation. i.e. release versions will have internal ID 'Jalview'

JAL-3253 JAL-3032 upgrade to SwingJS-3.2.9.v1e complete 2/2

- random tests failing can be ignored (just thread timing issues)

(AlignmentPanelTest and SeqCanvasTest). Problem is clearly from

concurrent thread interference not likely to affect standard

operation.

- branch can be deleted after merging.

JAL-3253 JAL-3032 upgrade to SwingJS-3.2.9.v1e complete

- random tests failing can be ignored (just thread timing issues)

(AlignmentPanelTest and SeqCanvasTest). Problem is clearly from

concurrent thread interference not likely to affect standard

operation.

- branch can be deleted after merging.

    • binary
    /swingjs/ver/3.2.9/SwingJS-site.zip
JAL-3253 JAL-3260 SwingJS-3.2.9.v1e and tests

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    /src/jalview/gui/AlignmentPanel.java
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    /test/jalview/gui/AlignmentPanelTest.java
JAL-3577 Added DS_Store for Test release to look like proper installer

    • binary
    /utils/install4j/DS_Store-TEST-RELEASE
JAL-3577 Added a jalviewt scheme ONLY to TEST-RELEASE and TEST-LOCAL channels so that a test jvl can be made to ONLY open in the Test installation

JAL-3577 cleaned up old DMG files. Added NON-RELEASE DMG files. Changed how Jalview name propogates through install4j -- now dynamically created depending on the CHANNEL

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    /utils/install4j/DMG_background_image_creation_README.md
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    /utils/install4j/DMG_creation_README.md
    • binary
    /utils/install4j/DS_Store-NON-RELEASE
    • binary
    /utils/install4j/jalview_dmg_background-NON-RELEASE.png
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    /utils/install4j/jalview_dmg_background-NON-RELEASE.svg
    • binary
    /utils/install4j/jalview_dmg_background_blur_72dpi.png
  1. … 4 more files in changeset.
JAL-3577 First attempt at new folder names

Merge branch 'develop' into releases/Release_2_11_1_Branch

JAL-3572 Added getdown Implementation-Version to getdown jars META-INF/MANIFEST.MF

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    /getdown/lib/FJVL_VERSION
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    /getdown/lib/JVL_VERSION
    • binary
    /getdown/lib/getdown-launcher-local.jar
Merge branch 'improvement/JAL-3394_added_categories_to_unix_shell_installer_desktop_file' into develop

JAL-3438 Added spotless task to use the utils/eclipse/JalviewCodeStyle.xml to reformat all .java source files

JAL-3225 tasks to create extra desired settings for eclipse

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    /utils/eclipse/org.eclipse.jdt.groovy.core.prefs
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    /utils/eclipse/org.eclipse.jdt.ui.prefs
Merge branch 'Jalview-JS/develop' of https://source.jalview.org/git/jalview into Jalview-JS/develop

Merge branch 'documentation/Release_2_11_1_Branch' into releases/Release_2_11_1_Branch

Merge branch 'documentation/Release_2_11_1_Branch' into develop

JAL-3407 basic doc for releasing jalview - will be embellished as we go

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    /doc/releaseprocess.md
Merge branch 'documentation/Release_2_11_1_Branch' into releases/Release_2_11_1_Branch

JAL-3407 updated release date to 2nd April, and first draft of release notes

Merge branch 'develop' into Jalview-JS/develop

JAL-1889 better (?) wait for Conservation thread

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    /test/jalview/gui/AlignViewportTest.java
JAL-3248 quick fix to not remove doc/building.html with a gradle clean

JAL-3210 JAL-3130 merge changes to JSON processing

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    /src/jalview/ext/paradise/Annotate3D.java
Merge branch 'develop' into Jalview-JS/develop

Merge branch 'documentation/Release_2_11_1_Branch' into develop

Merge branch 'Jalview-JS/develop' of https://source.jalview.org/git/jalview.git into Jalview-JS/develop

JAL-3393 Don't need PDF file using Illustrator. Replaced with SVG using Inkscape

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    /utils/install4j/jalview_dmg_background_layers.pdf
JAL-3407 2.11.1.0 release date bump - maybe tomorrow - maybe the next day !

JAL-3407 JAL-3130 back out java 9+ syntax that breaks java 8 builds

JAL-3210 merged from develop: build.gradle and gradle.properties