jalview

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Commits this week: 3
Total Committers: 72
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Commits this week: 3

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Wednesday 02 Dec 2020
8:37 pm

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

JAL-3751 second occurrence of bug squashed

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    /src/jalview/util/MapList.java
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    /test/jalview/util/MapListTest.java
7:59 pm

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

JAL-3761 helper method reinstated to avoid code duplication

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    /src/jalview/util/MapList.java
2:01 pm

Ben Soares

JAL-3594 new logos, icons and cosmetics for getdown and install4j

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  16. … 20 more files in changeset.
Tuesday 01 Dec 2020
3:03 pm

Ben Soares

Merge branch 'develop' into merge/develop_and_rebase_squashed_merge_JAL-3628+JAL-3608+JAL-3609+JAL-3541+Release_2_11_1_Branch

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2:57 pm

Ben Soares

JAL-3609 JAL-3775 Updated getdown with re-factored HiDPISetting and ScreenInfo. No real functionality change.

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    /getdown/src/getdown/core/src/main/java/jalview/bin/HiDPISetting.java
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    /getdown/src/getdown/core/src/main/java/jalview/bin/ScreenInfo.java
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    /j11lib/getdown-core.jar
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2:52 pm

Ben Soares

JAL-3609 JAL-3775 Tests for jalview.bin.HiDPISetting

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    /test/jalview/bin/HiDPISettingTest1.java
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    /test/jalview/bin/HiDPISettingTest2.java
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    /test/jalview/bin/hidpiTestProps.jvprops
2:34 pm

Ben Soares

JAL-3609 JAL-3775 Refactoring a bit of jalview.bin.HiDPISetting so screen display can be mocked in tests by Mockito

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    /src/jalview/bin/HiDPISetting.java
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    /src/jalview/bin/ScreenInfo.java
2:30 pm

Ben Soares

JAL-3775 Adding Mockito jars for tests. Needed for HiDPISettingTest1

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    /utils/testnglibs/byte-buddy-1.10.15.jar
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    /utils/testnglibs/mockito-core-3.6.0.jar
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2:27 pm

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

JAL-3774 better translation

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    /resources/lang/Messages_es.properties
2:25 pm

Ben Soares

JAL-3530 Added a -nowebservicediscovery command line argument.

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    /src/jalview/bin/Jalview.java
2:16 pm

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

JAL-3774 missing i18n added, overlong translation shortened

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    /resources/lang/Messages.properties
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    /src/jalview/gui/Finder.java
Monday 30 Nov 2020
4:14 pm

Jim Procter

JAL-3690 for a laugh, lets enable web services!

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    /src/jalview/bin/Jalview.java
3:59 pm

Jim Procter

JAL-3690 update to next patched 3.2.9 j2s c336e447

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3:56 pm

Jim Procter

JAL-3690 update j2s from hanson1 branch 0b8b02bb

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Sunday 29 Nov 2020
5:55 pm

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

JAL-3774 fixed focus Finder from split frame

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    /resources/lang/Messages.properties
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    /src/jalview/gui/AlignFrame.java
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    /src/jalview/gui/Finder.java
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    /src/jalview/gui/SplitFrame.java
Friday 27 Nov 2020
5:24 pm

Ben Soares

JAL-3660 Fix for specified output format when using command line arg to convert a file

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    /src/jalview/bin/Jalview.java
5:24 pm

Ben Soares

JAL-3660 Fix for specified output format when using command line arg to convert a file

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    /src/jalview/bin/Jalview.java
4:01 pm

Mateusz Warowny

JAL-3690 List.copyOf() workaround

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    /src/jalview/workers/AlignCalcManager2.java
Thursday 26 Nov 2020
2:17 pm

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

JAL-3761 locateInFrom/To revised with tests; unused methods removed

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    /test/jalview/util/MapListTest.java
Friday 20 Nov 2020
1:04 pm

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

JAL-3779 apply properties to all groups with given name, not just first

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    /src/jalview/io/AnnotationFile.java
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    /test/jalview/io/AnnotationFileIOTest.java
11:59 am

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

JAL-3761 extra check that VCF feature is fully mappable to sequence

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    /src/jalview/io/vcf/VCFLoader.java
11:58 am

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

JAL-3761 debugged and working (but not tidied) locateInFrom2/To2

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    /src/jalview/util/MapList.java
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Thursday 19 Nov 2020
5:58 pm

Ben Soares

JAL-3521 removed unnecessary parts of the ext project in build.gradle

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    /build.gradle
4:17 pm

Ben Soares

JAL-3521 Minimal plugins and tasks needed to run tests and build jalview.jar

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    /build.gradle
Friday 13 Nov 2020
6:10 pm

Ben Soares

JAL-3775 Re-compiled Getdown jars

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6:09 pm

Ben Soares

JAL-3775 Eclipse re-formatting commit

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3:51 pm

Mateusz Warowny

JAL-3690 separate startup and poll code in SeqAnnotationCalcWorker

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    /src/jalview/ws/jws2/SeqAnnotationServiceCalcWorker.java
Thursday 12 Nov 2020
3:13 pm

Mateusz Warowny

JAL-3690 - fixed state inconsistency when restarting the calcworker

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    /src/jalview/workers/AlignCalcManager2.java
2:36 pm

Jim Procter

Merge branch 'feature/JAL-3469clinvarVCF' into spike/clinvar

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2:27 pm

Ben Soares

JAL-3628 Error when saving alert box has been moved in develop for JS, adding Platform.isHeadless test to new isSaveAlignmentSuccessful method.

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    /src/jalview/gui/AlignFrame.java