jalview

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Commits this week: 7
Total Committers: 71
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Commits this week: 7

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Tuesday 02 Mar
8:50 pm

Ben Soares

JAL-3826 Simple configuration with CodeStyle implemented in .editorconfig file

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    /.gitignore
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    /build.gradle
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    /src/.editorconfig
3:24 pm

Arnaud Gucciardi

First commit of 3DB FTS Panel & Restclient

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    /src/jalview/fts/service/threedbeacons/TDBeaconsFTSPanel.java
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    /src/jalview/fts/service/threedbeacons/TDBeaconsFTSRestClient.java
Friday 26 Feb
3:02 pm

Jim Procter

JAL-3816 release notes for JAL-3806

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    /help/help/html/releases.html
2:02 pm

Jim Procter

Merge branch 'bug/JAL-3806_mappingCoversSequence' into releases/Release_2_11_1_Branch

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1:55 pm

Jim Procter

JAL-3816 JAL-3814 JAL-3813 JAL-3812 JAL-3811 JAL-3818 release notes and date for 2.11.1.4 release

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    /help/help/html/releases.html
Wednesday 24 Feb
4:49 pm

Jim Procter

Merge branch 'bug/JAL-3818_jmolDeadlock' into releases/Release_2_11_1_Branch

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4:48 pm

Jim Procter

Merge branch 'releases/Release_2_11_1_4_debianpatches' into releases/Release_2_11_1_Branch

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Monday 22 Feb
6:26 pm

Mateusz Warowny

Merge branch 'bug/JAL-3807_jpred-with-slivka' into alpha/JAL-3066_Jalview_212_slivka-integration

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    /src/jalview/ws/slivkaws/SlivkaWSInstance.java
12:20 pm

Mateusz Warowny

Merge branch 'bug/JAL-3809_ws_params_dialog_fix' into alpha/JAL-3066_Jalview_212_slivka-integration

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12:05 pm

Mateusz Warowny

Merge branch 'bug/JAL-3810_annotation_ws_stopping_abruptly' into bug/JAL-3809_ws_params_dialog_fix

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11:48 am

Mateusz Warowny

Merge branch 'feature/JAL-3690_callback-based-web-services' into alpha/JAL-3066_Jalview_212_slivka-integration

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Thursday 18 Feb
6:42 pm

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

JAL-3822 pass panel height and width to wrapped geometry calculations

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    /src/jalview/gui/SeqCanvas.java
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    /src/jalview/gui/SeqPanel.java
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    /test/jalview/gui/SeqPanelTest.java
11:43 am

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

JAL-2422 remove temporary patch (requires ChimeraX Daily or 1.2 build)

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    /src/jalview/gui/JalviewChimeraXBindingModel.java
Wednesday 17 Feb
5:16 pm

Jim Procter

JAL-3821 patch for 2.11.2 to retrieve RNA ENA records as RNA

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    • +65
    /src/jalview/io/EmblFlatFile.java
4:27 pm

Jim Procter

Merge branch 'feature/JAL-3692enaEndpoint' into patch/for2.11.2/JAL-3821_ena_rna_moltype

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    /resources/lang/Messages.properties
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    /resources/lang/Messages_es.properties
4:08 pm

Jim Procter

JAL-3821 rough and ready patch translates t/T to u/U when mol_type includes rna

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    /src/jalview/io/EmblFlatFile.java
Friday 12 Feb
6:24 pm

Ben Soares

JAL-3521 High quality file icons for jalview associated files, and associated mime-type icon references

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    • binary
    /utils/debian/debian/icons/128x128/apps/jalview-icon.png
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    /utils/debian/debian/icons/16x16/apps/jalview-icon.png
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    /utils/debian/debian/icons/16x16/mimetypes/x-jalview-file.png
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    /utils/debian/debian/icons/22x22/mimetypes/x-jalview-file.png
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    /utils/debian/debian/icons/24x24/mimetypes/x-jalview-file.png
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    /utils/debian/debian/icons/256x256/apps/jalview-icon.png
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    /utils/debian/debian/icons/32x32/apps/jalview-icon.png
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    /utils/debian/debian/icons/32x32/mimetypes/x-jalview-file.png
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    /utils/debian/debian/icons/48x48/apps/jalview-icon.png
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    /utils/debian/debian/icons/48x48/mimetypes/x-jalview-file.png
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    /utils/debian/debian/icons/512x512/apps/jalview-icon.png
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    /utils/debian/debian/icons/512x512/mimetypes/x-jalview-file.png
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    /utils/debian/debian/icons/64x64/apps/jalview-icon.png
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    /utils/debian/debian/jalview-file.png
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    /utils/debian/debian/jalview-mime.xml
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    /utils/debian/file_associations_template-shared-mime-info.xml
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    /utils/debian/mime_types_for_debian.pl
4:19 pm

Mateusz Warowny

JAL-3807 - Add single sequence capabilities to jws2.JPredClient

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    /src/jalview/ws/api/JPredMutlipleAlignmentServiceI.java
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    /src/jalview/ws/api/JPredServiceI.java
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    /src/jalview/ws/jws2/JPredClient.java
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    /src/jalview/ws/jws2/JPredThread.java
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    /src/jalview/ws/slivkaws/SlivkaJPredServiceInstance.java
4:19 pm

Mateusz Warowny

JAL-3807 - Add single sequence capabilities to jws2.JPredClient

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    /src/jalview/ws/api/JPredMutlipleAlignmentServiceI.java
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    /src/jalview/ws/api/JPredServiceI.java
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    /src/jalview/ws/jws2/JPredClient.java
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    /src/jalview/ws/jws2/JPredThread.java
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    /src/jalview/ws/slivkaws/SlivkaJPredServiceInstance.java
11:26 am

Mateusz Warowny

JAL-3807 - Move new JPred client to the jws2 package.

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    /src/jalview/ws/JPredClient.java
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    /src/jalview/ws/JPredThread.java
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    /src/jalview/ws/api/ServiceWithParameters.java
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    /src/jalview/ws/jws2/JPredClient.java
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    /src/jalview/ws/jws2/JPredThread.java
11:26 am

Mateusz Warowny

JAL-3807 - Move new JPred client to the jws2 package.

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    /src/jalview/ws/JPredClient.java
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    /src/jalview/ws/JPredThread.java
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    /src/jalview/ws/api/ServiceWithParameters.java
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    /src/jalview/ws/jws2/JPredClient.java
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    /src/jalview/ws/jws2/JPredThread.java
Thursday 11 Feb
4:15 pm

Mateusz Warowny

JAL-3807 - Re-implement results processing.

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    /src/jalview/ws/JPredThread.java
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    /src/jalview/ws/api/JPredMutlipleAlignmentServiceI.java
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    /src/jalview/ws/slivkaws/SlivkaJPredServiceInstance.java
4:15 pm

Mateusz Warowny

JAL-3807 - Re-implement results processing.

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    /src/jalview/ws/JPredThread.java
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    /src/jalview/ws/api/JPredMutlipleAlignmentServiceI.java
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    /src/jalview/ws/slivkaws/SlivkaJPredServiceInstance.java
11:30 am

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

JAL-3818 process Jmol callbacks in AWT thread

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    /src/jalview/ext/jmol/JalviewJmolBinding.java
Wednesday 10 Feb
5:19 pm

Ben Soares

JAL-3251 On linux set (sun.awt.X11.XToolkit.)awtAppClassName to set the grouped application name in the taskbar

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    /src/jalview/gui/Desktop.java
12:19 am

Ben Soares

JAL-3521 Change grouped Jalview windows on linux taskbar to have name Jalview

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    /src/jalview/gui/Desktop.java
12:12 am

Ben Soares

JAL-3521 Changed wording of INSTALLATION in source tarball build_properties

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    /build.gradle
12:12 am

Ben Soares

JAL-3521 Changed wording of INSTALLATION in source tarball build_properties

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    /build.gradle
Monday 08 Feb
7:00 pm

Ben Soares

JAL-3521 Adding a build_properties into sourceDist tarball, with INSTALLATION=SourceDist git-commit...

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    /build.gradle
7:00 pm

Ben Soares

JAL-3521 Adding a build_properties into sourceDist tarball, with INSTALLATION=SourceDist git-commit...

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    /build.gradle