jalview

Clone Tools

Stats

Commits this week: 8
Total Committers: 73
Last Commit:
Commits this week: 8

Lines of code count not available

Commit Activity

Commits By Day In Week
52 week commits volume
Commits By Day In Week
Commits by day
Commits By Day In Week
Commits by hour
Commits By Hour In Day
Commit calendar
 

Most active committers (90 days)

loading
loading
  • last updated a few seconds ago
All Commits Reviews
Constraints
Constraints: committers
 
Constraints: files
Constraints: dates
Monday 31 Aug 2020
10:33 am

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

JAL-3730 retry ping before failing; sysout logging changed to Cache.log

Options
    • -9
    • +10
    /src/jalview/ext/ensembl/EnsemblMap.java
    • -27
    • +43
    /src/jalview/ext/ensembl/EnsemblRestClient.java
    • -4
    • +4
    /src/jalview/ext/ensembl/EnsemblSeqProxy.java
Monday 24 Aug 2020
11:00 am

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

JAL-3018 updated reviewed REST version to 12.0

Options
    • -2
    • +2
    /src/jalview/ext/ensembl/EnsemblRestClient.java
Monday 17 Aug 2020
10:55 am

Jim Procter

Merge branch 'task/JAL-3597memoryLeakTest' into develop

Options
Thursday 13 Aug 2020
11:05 pm

Ben Soares

JAL-3597 Increased heap passmark to <= 45MB and report smallest of failed attempts heap size

Options
    • -5
    • +10
    /test/jalview/gui/FreeUpMemoryTest.java
Wednesday 12 Aug 2020
11:15 am

Jim Procter

Merge branch 'task/JAL-3608_property_set_laf_and_tests' into develop

Options
    • -0
    • +5
    /build.gradle
    • -1
    • +10
    /src/jalview/bin/Cache.java
    • -37
    • +178
    /src/jalview/bin/Jalview.java
Tuesday 04 Aug 2020
7:30 pm

Ben Soares

JAL-3477 Improved command line arguments description in memory.html

Options
    • -4
    • +5
    /help/help/html/memory.html
6:13 pm

Ben Soares

JAL-3477 Added -help text for jvmmempc and jvmmemmax. Fixed typo and slight rewording in help/memory.html

Options
    • -3
    • +3
    /help/help/html/features/clarguments.html
    • -80
    • +79
    /src/jalview/bin/Jalview.java
Monday 03 Aug 2020
11:20 am

Ben Soares

JAL-3477 added help documentation for executable jar command line arguments -jvmmempc and -jvmmemmax

Options
    • -0
    • +19
    /help/help/html/features/clarguments.html
    • -1
    • +10
    /help/help/html/memory.html
10:40 am

Jim Procter

Merge branch 'bug/JAL-2983negativeSliderMin' into develop

Conflicts:

src/jalview/gui/FeatureSettings.java

src/jalview/gui/FeatureTypeSettings.java

Options
    • -20
    • +13
    /src/jalview/gui/AnnotationColourChooser.java
    • -15
    • +13
    /src/jalview/gui/AnnotationColumnChooser.java
    • -2
    • +2
    /src/jalview/gui/FeatureSettings.java
    • -34
    • +28
    /src/jalview/gui/FeatureTypeSettings.java
Wednesday 29 Jul 2020
6:47 pm

Jim Procter

JAL-3371 JAL-2983 don't modify 'extent' of slider - this is managed by look and feel

Options
    • -3
    • +1
    /src/jalview/gui/Slider.java
Tuesday 28 Jul 2020
1:36 pm

Jim Procter

Merge branch 'feature/JAL-3615gzipXfam' into develop

Options
12:17 pm

Jim Procter

JAL-3615 JAL-2656 missing import after cherrypick

Options
    • -0
    • +1
    /src/jalview/io/FileParse.java
11:32 am

Jim Procter

JAL-2656 recognise non-HTTP URI input streams as gzipped by detecting the gzip magic header

Options
    • -8
    • +24
    /src/jalview/io/FileParse.java
11:29 am

Jim Procter

JAL-2656 recognise Gzipped file input streams by their content, not their filename

Conflicts:

src/jalview/io/FileParse.java

cherypicked from 2.11.1.1 release patch

Options
    • -21
    • +58
    /src/jalview/io/FileParse.java
11:18 am

Jim Procter

JAL-3615 update tests for Rfam/Pfam specific gzip endpoints

Options
    • -1
    • +1
    /test/jalview/ws/dbsources/PfamFullTest.java
    • -1
    • +1
    /test/jalview/ws/dbsources/PfamSeedTest.java
    • -1
    • +1
    /test/jalview/ws/dbsources/RfamFullTest.java
    • -1
    • +1
    /test/jalview/ws/dbsources/RfamSeedTest.java
Monday 27 Jul 2020
3:10 pm

Jim Procter

JAL-3697 show total number of features not shown

Options
    • -1
    • +1
    /src/jalview/gui/SeqPanel.java
3:05 pm

Jim Procter

JAL-3696 log the error message from the exception to the console

Options
    • -1
    • +1
    /src/jalview/io/vcf/VCFLoader.java
2:59 pm

Jim Procter

JAL-3695 htsjdk 2.12 -> 2.23 (library change only, no code change. needs gradle refresh in eclipse)

Options
    • binary
    /j11lib/htsjdk-2.12.0.jar
    • binary
    /j11lib/htsjdk-2.23.0.jar
    • binary
    /j8lib/htsjdk-2.12.0.jar
    • binary
    /j8lib/htsjdk-2.23.0.jar
Monday 20 Jul 2020
9:17 am

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

JAL-3597 slight tidying of code and Javadoc, passmark now heap <= 38MB

Options
    • -46
    • +49
    /test/jalview/gui/FreeUpMemoryTest.java
Tuesday 14 Jul 2020
5:08 pm

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

JAL-1421 last change tidied up properly

Options
    • -1
    • +1
    /src/jalview/gui/TreeCanvas.java
9:44 am

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

JAL-1421 types added to nameHash and nodeHash maps

Options
    • -35
    • +30
    /src/jalview/gui/TreeCanvas.java
9:43 am

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

JAL-3597 additional references nulled, bug in test corrected

Options
    • -0
    • +6
    /src/jalview/gui/PCAPanel.java
    • -0
    • +12
    /src/jalview/gui/TreePanel.java
    • -0
    • +1
    /src/jalview/renderer/AnnotationRenderer.java
    • -0
    • +1
    /src/jalview/viewmodel/AlignmentViewport.java
    • -33
    • +74
    /test/jalview/gui/FreeUpMemoryTest.java
Wednesday 08 Jul 2020
12:47 am

Ben Soares

JAL-3608 Changes from code review CR-JAL-236

Options
    • -13
    • +9
    /src/jalview/bin/Jalview.java
Tuesday 07 Jul 2020
8:50 am

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

JAL-1424 streamlined message checker, corrected applet lookup keys

Options
    • -5
    • +5
    /src/jalview/appletgui/APopupMenu.java
    • -7
    • +7
    /src/jalview/appletgui/AlignFrame.java
    • -4
    • +4
    /src/jalview/appletgui/AppletJmol.java
    • -4
    • +4
    /src/mc_view/AppletPDBViewer.java
    • -20
    • +30
    /utils/MessageBundleChecker.java
Monday 06 Jul 2020
3:59 pm

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

JAL-1424 slight tidying of reporting

Options
    • -20
    • +35
    /utils/MessageBundleChecker.java
3:57 pm

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

JAL-3311 JAL-3141 JAL-3144 tidying obsolete message bundle entries

Options
    • -36
    • +1
    /resources/lang/Messages.properties
    • -36
    • +1
    /resources/lang/Messages_es.properties
    • -2
    • +1
    /src/jalview/controller/AlignViewController.java
    • -7
    • +5
    /src/jalview/fts/core/FTSRestClient.java
    • -6
    • +5
    /src/jalview/gui/VamsasApplication.java
    • -4
    • +2
    /src/jalview/io/VamsasAppDatastore.java
    • -2
    • +2
    /src/jalview/io/vamsas/Rangetype.java
12:57 pm

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

JAL-3518 Spanish text for 'write features'

Options
    • -3
    • +2
    /resources/lang/Messages_es.properties
12:37 pm

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

JAL-3570 JAL-3187 spanish translations for tabbed feature settings

Options
    • -2
    • +8
    /resources/lang/Messages_es.properties
10:05 am

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

JAL-3570 updated external help links

Options
    • -1
    • +1
    /help/help/html/index.html
    • -1
    • +1
    /help/help/html/webServices/AACon.html
    • -1
    • +1
    /help/help/html/webServices/msaclient.html
Thursday 02 Jul 2020
5:24 pm

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

JAL-2656 JAL-3615 check response headers to test for gzipped url reply

Options
    • -53
    • +52
    /src/jalview/io/FileParse.java
    • -1
    • +1
    /src/jalview/ws/dbsources/Pfam.java
    • -1
    • +1
    /src/jalview/ws/dbsources/Rfam.java
    • -34
    • +0
    /test/jalview/io/FileParseTest.java