jalview.git
2018-03-21 Jim ProcterMerge branch 'develop' into features/JAL-2909_bamImport2_11
2018-03-21 Jim ProcterJAL-2754 reinstate PA import from bad conflict merge
2018-03-21 Jim ProcterJAL-2754 remove duplicate classpath entry again
2018-03-21 Jim ProcterMerge branch 'develop' into features/JAL-2909_bamImport2_11
2018-03-21 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch' into...
2018-03-21 Jim ProcterMerge branch 'patch/JAL-2754_patch2104forJava8' into...
2018-03-21 Jim ProcterJAL-2754 don’t use deprecated api for getting font...
2018-03-21 Jim ProcterJAL-2754 fix eclipse compilation error about referencin...
2018-03-21 gmungocJAL-2929 use configure Overview gap colour instead...
2018-03-21 Jim ProcterJAL-2754 remove duplicate java 8 classpath
2018-03-21 Jim ProcterMerge branch 'develop' into features/JAL-2909_bamImport2_11
2018-03-21 Jim ProcterMerge branch 'patch/JAL-2754_patch2104forJava8' into...
2018-03-21 Jim ProcterMerge branch 'patch/JAL-2754_patch2104forJava8' into...
2018-03-21 Jim ProcterMerge branch 'patch/JAL-2754_patch2104forJava8' into...
2018-03-21 Jim ProcterJAL-2754 dont put '<>' in <echo> text!
2018-03-21 Jim ProcterMerge branch 'feature/JAL-2909bamfiles_features' into...
2018-03-21 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch' into...
2018-03-21 Jim ProcterMerge branch 'patch/JAL-2754_patch2104forJava8' into...
2018-03-21 Jim ProcterJAL-2754 clean up proguard path spec and config variables
2018-03-21 gmungocJAL-2754 renamed proguard.jar to include version number
2018-03-21 gmungocJAL-2754 5.3.3 update of proguard.jar
2018-03-21 gmungocJAL-2754 update to specify Java 1.8(+)
2018-03-21 gmungocJAL-2754 update to Java 1.8
2018-03-20 Jim ProcterJAL-2909 separate reverse and forward strand reads... feature/JAL-2909bamfiles_features
2018-03-20 Jim ProcterJAL-2909 recognise .bam extension in URL and allow...
2018-03-16 gmungocJAL-2679 getGeneId() now uses the same pattern as getGe...
2018-03-16 gmungocMerge remote-tracking branch 'origin/releases/Release_2...
2018-03-16 gmungocJAL-2922 update FeatureRenderer and repaint feature...
2018-03-16 gmungocMerge branch 'bug/JAL-2865removeGC' into develop
2018-03-15 gmungocJAL-2893 enabling Get Crossreferences to ENSEMBLGENOMES
2018-03-14 gmungocJAL-2893 include ENSEMBLGENOMES as a 'roundtrip db...
2018-03-14 gmungocJAL-2679 reinstating changes lost in VCF merge
2018-03-14 gmungocJAL-2679 reinstating changes lost in VCF merge
2018-03-14 Jim ProcterJAL-2930 JAL-2924 JAL-2913 JAL-2926 JAL-2906 2.10.4...
2018-03-13 gmungocJAL-2913 use FIGURE_FIXEDIDWIDTH (not FIGURE_USERIDWIDTH)
2018-03-08 gmungocMerge remote-tracking branch 'origin/releases/Release_2... merges/JAL-2906_update2_11_from_2_10_4
2018-03-08 gmungocJAL-2885 tests updated for code changes
2018-03-08 gmungocJAL-2930 use MouseWheelEvent.getPreciseWheelRotation...
2018-03-07 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch' into...
2018-03-07 gmungocMerge branch 'bugs/JAL-2922' into releases/Release_2_10...
2018-03-07 gmungocJAL-2922 [2] not [1] for Boolean column of table bugs/JAL-2922
2018-03-07 gmungocMerge branch 'bugs/JAL-2922' into releases/Release_2_10...
2018-03-07 gmungocJAL-2922 i18n and bespoke handler for Invert Selection
2018-03-07 gmungocMerge branch 'bug/JAL-2924nullTooltip' into releases...
2018-03-07 gmungocJAL-2926 fix copy group consensus (and paste sequence...
2018-03-07 gmungocJAL-2925 handle empty annotation when copying group...
2018-03-07 gmungocJAL-2913 use FIGURE_USERIDWIDTH for fixed id width...
2018-03-03 Jim ProcterJAL-2909 soft clip and handclap features (should use...
2018-03-02 Jim ProcterJAL-2909 add sequence feature for quality
2018-03-02 Jim ProcterJAL-2909 add sequence feature for insertions
2018-03-01 kiramtJAL-2909 Updated tests feature/JAL-2909bamfiles
2018-03-01 kiramtJAL-2909 fixed another insertions bug
2018-02-28 kiramtJAL-2909 Fixed a bug in the insertions code
2018-02-28 gmungocJAL-2924 no tooltip over null annotation positions bug/JAL-2924nullTooltip
2018-02-28 kiramtJAL-2909 Gaps at start of reads only from start of...
2018-02-28 kiramtJAL-2909 Wire up coordinates dialog with bam file reader
2018-02-28 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch_merged_JAL...
2018-02-27 Jim ProcterJAL-2759 release notes for 2.10.4
2018-02-27 Jim ProcterMerge branch 'feature/JAL-2759' into merge/JAL-2759_2104
2018-02-27 Jim Procterfix for JAL-2922 - update states all at once and then...
2018-02-27 kiramtJAL-2909 Tidy up bam file cigar code
2018-02-26 kiramtJAL-2909 Bam file parsing with insertions, first pass
2018-02-26 kiramtJAL-2909 Changes to htsjdk import control
2018-02-26 kiramtJAL-2909 Cigar parsing tests
2018-02-26 Jim ProcterMerge branch 'feature/JAL-984splitAdjuster' into releas...
2018-02-26 Jim ProcterJAL-984 remove all references to idwidth.gif - in build... feature/JAL-984splitAdjuster
2018-02-23 Jim ProcterJAL-2885 release notes
2018-02-23 Jim ProcterMerge branch 'features/JAL-2885UniprotHttps' into relea...
2018-02-23 Jim ProcterJAL-2885 xfam https features/JAL-2885UniprotHttps
2018-02-23 Jim ProcterJAL-2885 XFAM_DOMAIN->XFAM_BASEURL
2018-02-23 Jim ProcterJAL-2885 Ensembl* -> https
2018-02-23 Jim ProcterJAL-2885 ENSEMBL-DOMAIN -> ENSEMBL-BASEURL
2018-02-23 Jim ProcterJAL-2885 renamed base URL getter from getDomain..
2018-02-22 Jim ProcterMerge branch 'feature/JAL-984splitAdjuster' into releas...
2018-02-22 Jim ProcterJAL-984 ID width adjuster needs to be white !
2018-02-22 Jim ProcterJAL-2666 release notes
2018-02-22 Jim ProcterMerge branch 'bug/JAL-2666' into releases/Release_2_10_...
2018-02-22 Jim ProcterMerge branch 'feature/JAL-984splitAdjuster' into releas...
2018-02-22 Jim ProcterJAL-984 remove all references to idwidth.gif and use...
2018-02-22 Jim ProcterJAL-2906 typo fixes
2018-02-22 Jim ProcterJAL-984 release notes
2018-02-22 Jim ProcterMerge branch 'feature/JAL-984splitAdjuster' into releas...
2018-02-22 Jim ProcterJAL-294 remove unneeded paint() method
2018-02-22 Jim ProcterJAL-984 remove commented/unnecessary if clause
2018-02-21 Jim ProcterJAL-2906 release notes for 2.10.4
2018-02-21 Jim ProcterMerge branch 'bug/JAL-2778again' into releases/Release_...
2018-02-21 Jim ProcterJAL-2778 reinstate transparent windows to avoid ugly... bug/JAL-2778again
2018-02-21 kiramtJAL-2909 Partial insertions
2018-02-21 kiramtJAL-2778 Adjust cursor changes in overview panel
2018-02-21 kiramtJAL-2778 Revert back to old synchronisation
2018-02-20 kiramtJAL-2909 Modified classpath
2018-02-20 kiramtJAL-2909 Insertions almost
2018-02-20 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch' into...
2018-02-20 gmungocJAL-2897 updated unit test for code change features/JAL-1793VCF
2018-02-20 gmungocMerge branch 'develop' into features/JAL-1793VCF
2018-02-20 Jim ProcterMerge branch 'bugs/JAL-2780_JAL-2781_pdbnegativenums...
2018-02-19 kiramtJAL-2909 Read in a bam file - but strand/location unaware
2018-02-19 kiramtJAL-2909 Removed buggy CIGAR parsing code which was...
2018-02-15 Jim ProcterMerge branch 'develop' into releases/Release_2_10_4_Branch
2018-02-15 Jim ProcterJAL-2906 bump release version and cut new release note...
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