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You are running Crucible 4.2.1 with FishEye 4.2.1 (20161109135523 2016-11-09)

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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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    • +240
    /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
Thursday 25 Feb
3:57 pm

Mungo Carstairs

3:56 pm

Mungo Carstairs

This is likely an improvement on the "roll your own" pattern of setting Runnable handlers for dialog responses as hacked together for JalviewJS (JAL-3048). If so, it would be preferable (but no sma...

This is likely an improvement on the "roll your own" pattern of setting Runnable handlers for dialog responses as hacked together for JalviewJS (JAL-3048). If so, it would be preferable (but no small job) to change all dialogs to this pattern.

There are still numerous dialogs that have not been changed to either pattern (so won't work in SwingJS): see comment at https://issues.jalview.org/browse/?focusedCommentId=20525&page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel#JAL-3048comment-20525.

2:21 pm

Mungo Carstairs

Class has some compiler warnings which could easily be resolved (typed Hashtable, unused import).

Class has some compiler warnings which could easily be resolved (typed Hashtable, unused import).

2:17 pm

Mungo Carstairs

It would be good to add Javadoc to this method

It would be good to add Javadoc to this method

2:14 pm

Mungo Carstairs

As an aside, I would suggest inlining (removing) the two overloaded constructors that call this one (to reduce code bloat).

As an aside, I would suggest inlining (removing) the two overloaded constructors that call this one (to reduce code bloat).

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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4:45 pm

Jim Procter

4:43 pm

Jim Procter

JAL-3818 process Jmol callbacks in AWT thread
JAL-3818 process Jmol callbacks in AWT thread
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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    /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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    /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/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/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/jws2/JPredThread.java
Thursday 11 Feb
5:06 pm

Mungo Carstairs

Or can it be compiled to Java 8 bytecode?

Or can it be compiled to Java 8 bytecode?

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/slivkaws/SlivkaJPredServiceInstance.java