jalview

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Commits this week: 2
Total Committers: 73
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Commits this week: 2

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Thursday 09 Apr 2020
7:03 pm

Bob Hanson

temp push

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    • -0
    • +13
    /src/jalview/api/AlignFrameI.java
    • -0
    • +82
    /src/jalview/api/JalviewApp.java
    • -2
    • +3
    /src/jalview/appletgui/AlignFrame.java
    • -0
    • +8
    /src/jalview/appletgui/AlignmentPanel.java
    • -3
    • +4
    /src/jalview/appletgui/AnnotationColourChooser.java
    • -2
    • +2
    /src/jalview/appletgui/AnnotationLabels.java
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    • +2
    /src/jalview/appletgui/AnnotationPanel.java
    • -10
    • +5
    /src/jalview/appletgui/EmbmenuFrame.java
    • -1
    • +1
    /src/jalview/appletgui/FeatureColourChooser.java
    • -1
    • +1
    /src/jalview/appletgui/FeatureSettings.java
    • -4
    • +2
    /src/jalview/appletgui/FontChooser.java
    • -2
    • +2
    /src/jalview/appletgui/IdPanel.java
    • -32
    • +43
    /src/jalview/appletgui/OverviewCanvas.java
    • -17
    • +18
    /src/jalview/appletgui/OverviewPanel.java
    • -2
    • +2
    /src/jalview/appletgui/ScalePanel.java
  16. … 114 more files in changeset.
Wednesday 08 Apr 2020
8:32 pm

Bob Hanson

reconciled with applet

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    • -4
    • +4
    /src/jalview/io/BackupFiles.java
    • -9
    • +9
    /test/jalview/io/BackupFilesTest.java
8:16 pm

Bob Hanson

reconciled with applet

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    • -0
    • +155
    /src/jalview/bin/ApplicationSingletonProvider.java
    • -111
    • +302
    /src/jalview/bin/Cache.java
    • -169
    • +345
    /src/jalview/gui/Preferences.java
    • -4
    • +4
    /src/jalview/io/BackupFiles.java
    • -11
    • +45
    /src/jalview/jbgui/GPreferences.java
4:08 pm

Bob Hanson

JAL-3253 Platform reconciled with applet

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    • -118
    • +328
    /src/jalview/util/Platform.java
3:12 pm

Bob Hanson

JAL-3253 SwingJS upgrade including J11 transpiler 3.2.9.v1f

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    • binary
    /swingjs/SwingJS-site.zip
    • -1
    • +0
    /swingjs/_j2sclasslist.txt
    • binary
    /swingjs/net.sf.j2s.core-j11.jar
    • binary
    /swingjs/net.sf.j2s.core.jar
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    • +1
    /swingjs/timestamp
    • binary
    /swingjs/ver/3.2.9/SwingJS-site.zip
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    /swingjs/ver/3.2.9/_j2sclasslist.txt
    • binary
    /swingjs/ver/3.2.9/net.sf.j2s.core-j11.jar
    • binary
    /swingjs/ver/3.2.9/net.sf.j2s.core.jar
    • -1
    • +1
    /swingjs/ver/3.2.9/timestamp
3:12 pm

Bob Hanson

JAL-3253 merge of new SwingJS api

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    • -0
    • +185
    /src/swingjs/api/JSUtilI.java
    • -0
    • +35
    /src/swingjs/api/js/HTML5Applet.java
Tuesday 07 Apr 2020
8:39 pm

Ben Soares

merge from develop: the fixy bit

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    • -2
    • +0
    /build.gradle
8:14 pm

Ben Soares

merge from develop: the rest of the changes

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    • -6
    • +118
    /build.gradle
    • -7
    • +5
    /gradle.properties
5:55 pm

Ben Soares

merge from develop: Most of the changes

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    • -1
    • +1
    /src/jalview/gui/Desktop.java
4:27 pm

Bob Hanson

JAL-3589 (old Platform) fix for Jalvew-JS/develop only.

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    • -10
    • +9
    /src/jalview/util/Platform.java
2:30 pm

gmungoc <g.m.carstairs@dundee.ac.uk>

JAL-3210 fudge for JalviewJS to avoid IntervalStore incompatibility

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    • -8
    • +8
    /src/jalview/renderer/seqfeatures/FeatureRenderer.java
    • -16
    • +25
    /src/jalview/viewmodel/seqfeatures/FeatureRendererModel.java
2:24 pm

Ben Soares

JAL-3577 improvement to non-release DMG background and source SVG. Updated docs on image specification/creation.

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    • -2
    • +6
    /utils/install4j/DMG_background_image_creation_README.md
    • binary
    /utils/install4j/jalview_dmg_background-NON-RELEASE.png
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    /utils/install4j/jalview_dmg_background-NON-RELEASE.svg
    • -0
    • +44379
    /utils/install4j/jalview_dmg_background_blur_layers-NON-RELEASE.svg
1:30 am

Ben Soares

Merge branch 'task/JAL-3577_Jalview_Test_installers' into develop

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1:29 am

Ben Soares

JAL-3577 Added DEVELOP DMG styling. Improved TEST-RELEASE and NON-RELEASE styling

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    • -2
    • +5
    /build.gradle
    • binary
    /utils/install4j/DS_Store-DEVELOP
    • binary
    /utils/install4j/DS_Store-NON-RELEASE
    • -1
    • +1
    /utils/install4j/install4j8_template.install4j
    • binary
    /utils/install4j/jalview_dmg_background-DEVELOP.png
    • binary
    /utils/install4j/jalview_dmg_background-NON-RELEASE.png
    • binary
    /utils/install4j/jalview_dmg_background-TEST.png
Monday 06 Apr 2020
10:34 pm

Ben Soares

JAL-3577 Fixed Jalview Programme Group in Windows menu. Added examples folder for RELEASE channel only and Examples folder in Jalview Programme Group in Windows.

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    • -1
    • +31
    /build.gradle
    • -5
    • +27
    /utils/install4j/install4j8_template.install4j
5:47 pm

Jim Procter

JAL-3407 redact java 8 incompatible type inference

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    • -1
    • +1
    /src/jalview/gui/Desktop.java
5:25 pm

Jim Procter

JAL-3407 updated release date to Thursday 9th April, and release notes for JAL-3577 JAL-3581 JAL-3571

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    • -1
    • +12
    /help/help/html/releases.html
3:58 pm

gmungoc <g.m.carstairs@dundee.ac.uk>

JAL-3581 no hidden sequence marker if hidden markers not shown

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    • -6
    • +6
    /src/jalview/gui/IdCanvas.java
3:58 pm

gmungoc <g.m.carstairs@dundee.ac.uk>

JAL-3581 no hidden sequence marker if hidden markers not shown

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    • -6
    • +6
    /src/jalview/gui/IdCanvas.java
3:49 pm

Ben Soares

JAL-3577 Moved application Categories for freedesktop menus into correct place in install4j

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    • +6
    /build.gradle
    • -1
    • +1
    /gradle.properties
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    • +3
    /utils/install4j/install4j8_template.install4j
2:17 pm

gmungoc <g.m.carstairs@dundee.ac.uk>

Merge branch 'develop' into Jalview-JS/develop

Conflicts:

build.gradle

src/jalview/gui/SeqPanel.java

build.gradle and gradle.properties changes in develop ignored

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    • -1
    • +1
    /src/jalview/gui/SeqPanel.java
1:32 pm

Ben Soares

JAL-3577 removed debugging

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    • -2
    • +2
    /build.gradle
1:29 pm

Ben Soares

Merge branch 'task/JAL-3577_Jalview_Test_installers' into develop

Options
1:27 pm

Ben Soares

JAL-3577 Added existing and new Application IDs for Windows. Fixed Desktop shortcut and Menu entry.

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    • +13
    /build.gradle
    • -0
    • +1
    /gradle.properties
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    • +16
    /utils/install4j/install4j8_template.install4j
10:18 am

gmungoc <g.m.carstairs@dundee.ac.uk>

JAL-3579 no Feature Editor if features not shown

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    • -19
    • +19
    /src/jalview/gui/SeqPanel.java
9:20 am

Ben Soares

JAL-3577 Changed shortName to INTERNAL_ID

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    • -1
    • +1
    /utils/install4j/install4j8_template.install4j
Sunday 05 Apr 2020
10:50 am

Ben Soares

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'

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    • -2
    • +2
    /build.gradle
10:50 am

Ben Soares

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'

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    • +19
    /build.gradle
    • -1
    • +1
    /gradle.properties
    • -23
    • +9
    /utils/install4j/install4j8_template.install4j
Saturday 04 Apr 2020
1:01 am

Ben Soares

JAL-3577 Added DS_Store for Test release to look like proper installer

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    • -4
    • +15
    /build.gradle
    • binary
    /utils/install4j/DS_Store-TEST-RELEASE
Friday 03 Apr 2020
5:04 pm

Ben Soares

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

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    • -0
    • +4
    /build.gradle
    • -0
    • +7
    /utils/install4j/install4j8_template.install4j