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 19 Jul 2018
4:36 pm

Jim Procter

JAL-3047 don't set classes unconditionally (forgot to delete it in earlier patch)

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    • -1
    • +0
    /build.xml
Monday 02 Jul 2018
10:24 am

Jim Procter

JAL-3047 don’t let the makedist task complete if a clover build was performed

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    • -0
    • +3
    /build.xml
10:20 am

Jim Procter

JAL-3047 ‘cloverclasses’ build directory for instrumented classes (allow incremental compile and avoid releasing instrumented classes in production builds)

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    • -0
    • +2
    /build.xml
Wednesday 27 Jun 2018
6:17 pm

Jim Procter

JAL-3047 enable clover for testng

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    • -0
    • +4
    /build.xml
6:17 pm

Jim Procter

JAL-3047 ignore clover output dir

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    • -1
    • +2
    /.gitignore
Thursday 07 Jun 2018
4:24 pm

Jim Procter

JAL-3009 release notes

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    • -0
    • +3
    /help/html/releases.html
4:22 pm

Jim Procter

Merge branch 'bugs/JAL-3009_blockingNetworkThreads' into releases/Release_2_10_4_Branch

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4:05 pm

Jim Procter

JAL-2999 what's new and tweak release notes order

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    • -8
    • +8
    /help/html/releases.html
    • -4
    • +34
    /help/html/whatsNew.html
9:58 am

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

JAL-2920 format/comment tidy

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    • -5
    • +3
    /test/jalview/ws/dbsources/UniprotTest.java
9:55 am

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

JAL-2920 wrap description in <html/> if it includes <br/>

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    • -1
    • +9
    /src/jalview/ws/dbsources/Uniprot.java
    • -4
    • +8
    /test/jalview/ws/dbsources/UniprotTest.java
9:06 am

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

Merge branch 'releases/Release_2_10_4_Branch' of https://source.jalview.org/git/jalview.git into releases/Release_2_10_4_Branch

Options
Wednesday 06 Jun 2018
4:47 pm

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

JAL-2920 unit tests for 3 or more original or variant bases

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    • -2
    • +27
    /test/jalview/ws/dbsources/UniprotTest.java
4:41 pm

Jim Procter

JAL-2999 refine release notes

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    • -1
    • +1
    /help/html/releases.html
4:16 pm

Jim Procter

JAL-2999 release 2.10.4b1 on Thursday (promise!)

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    • +1
    /help/html/releases.html
4:15 pm

Jim Procter

JAL-2920 release notes

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    • -0
    • +4
    /help/html/releases.html
4:12 pm

Jim Procter

Merge branch 'bug/JAL-2920_uniprotvariantfeature' into releases/Release_2_10_4_Branch

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4:12 pm

Jim Procter

JAL-2920 revised TODO for JAL-3025

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    • -1
    • +2
    /src/jalview/ws/dbsources/Uniprot.java
4:06 pm

Jim Procter

JAL-2920 don’t output variant/original sequence as three-letter codes for more than three bases (pragmatic deviation from HGVC nomenclature)

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    • -11
    • +28
    /src/jalview/ws/dbsources/Uniprot.java
    • -4
    • +13
    /test/jalview/ws/dbsources/UniprotTest.java
3:33 pm

Jim Procter

JAL-2920 JAL-3017 uniprot XML schema included in mappings doc

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    • -0
    • +1
    /resources/uniprot_mapping.xml
3:22 pm

Jim Procter

JAL-1920 JAL-3017 use newline not <br/> in description and update test to cover multi-position variants and newline code

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    • -3
    • +11
    /src/jalview/ws/dbsources/Uniprot.java
    • -5
    • +11
    /test/jalview/ws/dbsources/UniprotTest.java
Monday 04 Jun 2018
9:31 am

Jim Procter

JAL-2999 update release notes and patch date to 5th June 2018

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    • -14
    • +19
    /help/html/releases.html
Saturday 02 Jun 2018
2:17 pm

Jim Procter

JAL-3017 parse multiple variant elements for uniprot feature Conflicts: src/jalview/datamodel/xdb/uniprot/UniprotFeature.java Merged JAL-3017 into upstream JAL-2920 patches for HGVC nomenclature note - should properly deal with delins variants http://varnomen.hgvs.org/recommendations/protein/variant/delins/

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    • -1
    • +1
    /resources/uniprot_mapping.xml
    • -3
    • +5
    /src/jalview/datamodel/xdb/uniprot/UniprotFeature.java
    • -10
    • +28
    /src/jalview/ws/dbsources/Uniprot.java
    • -3
    • +19
    /test/jalview/ws/dbsources/UniprotTest.java
2:17 pm

Jim Procter

JAL-3017 parse multiple variant elements for uniprot feature

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    • -1
    • +1
    /resources/uniprot_mapping.xml
    • -12
    • +35
    /src/jalview/datamodel/xdb/uniprot/UniprotFeature.java
    • -1
    • +10
    /test/jalview/ws/dbsources/UniprotTest.java
Wednesday 30 May 2018
11:58 am

Jim Procter

JAL-2999 2.10.4b1 release 31st May

Options
    • -1
    • +1
    /help/html/releases.html
11:50 am

Jim Procter

JAL-3009 news reader thread should be in background. TODO: patch newsreader so it uses GUI thread for displaying itself ?

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    • -2
    • +2
    /src/jalview/gui/Desktop.java
11:48 am

Jim Procter

JAL-3009 Identifiers.Org retrieval on background thread.

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    • -2
    • +3
    /src/jalview/gui/Desktop.java
Saturday 26 May 2018
1:36 pm

Jim Procter

JAL-2999 release date for 2.10.4b1 set for 27th May 2018

Options
    • -1
    • +1
    /help/html/releases.html
Friday 25 May 2018
1:58 pm

Jim Procter

Merge branch 'documentation/JAL-2999_r2104b1' into releases/Release_2_10_4_Branch

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1:58 pm

Jim Procter

Merge branch 'bug/JAL-2992panelHeight' into releases/Release_2_10_4_Branch

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1:56 pm

Jim Procter

Merge branch 'bug/JAL-1460_dragndropWindows' into releases/Release_2_10_4_Branch

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