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jalview.git
2018-04-23 gmungocJAL-2952 set negative TempFactor values as AlignmentAnn... commit | commitdiff | tree | snapshot
2018-04-18 gmungocJAL-2593 render 'duplicate' features if transparency... commit | commitdiff | tree | snapshot
2018-03-22 gmungocJAL-2929 unit test, tidy unused/unneeded fields/parameters commit | commitdiff | tree | snapshot
2018-03-21 Jim ProcterMerge branch 'patch/JAL-2754_patch2104forJava8' into... commit | commitdiff | tree | snapshot
2018-03-21 Jim ProcterJAL-2754 don’t use deprecated api for getting font... commit | commitdiff | tree | snapshot
2018-03-21 Jim ProcterJAL-2754 fix eclipse compilation error about referencin... commit | commitdiff | tree | snapshot
2018-03-21 gmungocJAL-2929 use configure Overview gap colour instead... commit | commitdiff | tree | snapshot
2018-03-21 Jim ProcterMerge branch 'patch/JAL-2754_patch2104forJava8' into... commit | commitdiff | tree | snapshot
2018-03-21 Jim ProcterJAL-2754 dont put '<>' in <echo> text! commit | commitdiff | tree | snapshot
2018-03-21 Jim ProcterMerge branch 'patch/JAL-2754_patch2104forJava8' into... commit | commitdiff | tree | snapshot
2018-03-21 Jim ProcterJAL-2754 clean up proguard path spec and config variables commit | commitdiff | tree | snapshot
2018-03-21 gmungocJAL-2754 renamed proguard.jar to include version number commit | commitdiff | tree | snapshot
2018-03-21 gmungocJAL-2754 5.3.3 update of proguard.jar commit | commitdiff | tree | snapshot
2018-03-21 gmungocJAL-2754 update to specify Java 1.8(+) commit | commitdiff | tree | snapshot
2018-03-21 gmungocJAL-2754 update to Java 1.8 commit | commitdiff | tree | snapshot
2018-03-16 gmungocJAL-2922 update FeatureRenderer and repaint feature... commit | commitdiff | tree | snapshot
2018-03-15 gmungocJAL-2893 enabling Get Crossreferences to ENSEMBLGENOMES commit | commitdiff | tree | snapshot
2018-03-14 gmungocJAL-2893 include ENSEMBLGENOMES as a 'roundtrip db... commit | commitdiff | tree | snapshot
2018-03-14 gmungocJAL-2679 reinstating changes lost in VCF merge commit | commitdiff | tree | snapshot
2018-03-14 Jim ProcterJAL-2930 JAL-2924 JAL-2913 JAL-2926 JAL-2906 2.10.4... commit | commitdiff | tree | snapshot
2018-03-13 gmungocJAL-2913 use FIGURE_FIXEDIDWIDTH (not FIGURE_USERIDWIDTH) commit | commitdiff | tree | snapshot
2018-03-08 gmungocJAL-2885 tests updated for code changes commit | commitdiff | tree | snapshot
2018-03-08 gmungocJAL-2930 use MouseWheelEvent.getPreciseWheelRotation... commit | commitdiff | tree | snapshot
2018-03-07 gmungocMerge branch 'bugs/JAL-2922' into releases/Release_2_10... commit | commitdiff | tree | snapshot
2018-03-07 gmungocJAL-2922 [2] not [1] for Boolean column of table bugs/JAL-2922 commit | commitdiff | tree | snapshot
2018-03-07 gmungocMerge branch 'bugs/JAL-2922' into releases/Release_2_10... commit | commitdiff | tree | snapshot
2018-03-07 gmungocJAL-2922 i18n and bespoke handler for Invert Selection commit | commitdiff | tree | snapshot
2018-03-07 gmungocMerge branch 'bug/JAL-2924nullTooltip' into releases... commit | commitdiff | tree | snapshot
2018-03-07 gmungocJAL-2926 fix copy group consensus (and paste sequence... commit | commitdiff | tree | snapshot
2018-03-07 gmungocJAL-2925 handle empty annotation when copying group... commit | commitdiff | tree | snapshot
2018-03-07 gmungocJAL-2913 use FIGURE_USERIDWIDTH for fixed id width... commit | commitdiff | tree | snapshot
2018-02-28 gmungocJAL-2924 no tooltip over null annotation positions bug/JAL-2924nullTooltip commit | commitdiff | tree | snapshot
2018-02-28 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch_merged_JAL... commit | commitdiff | tree | snapshot
2018-02-27 Jim ProcterJAL-2759 release notes for 2.10.4 commit | commitdiff | tree | snapshot
2018-02-27 Jim ProcterMerge branch 'feature/JAL-2759' into merge/JAL-2759_2104 commit | commitdiff | tree | snapshot
2018-02-27 Jim Procterfix for JAL-2922 - update states all at once and then... commit | commitdiff | tree | snapshot
2018-02-26 Jim ProcterMerge branch 'feature/JAL-984splitAdjuster' into releas... commit | commitdiff | tree | snapshot
2018-02-26 Jim ProcterJAL-984 remove all references to idwidth.gif - in build... feature/JAL-984splitAdjuster commit | commitdiff | tree | snapshot
2018-02-23 Jim ProcterJAL-2885 release notes commit | commitdiff | tree | snapshot
2018-02-23 Jim ProcterMerge branch 'features/JAL-2885UniprotHttps' into relea... commit | commitdiff | tree | snapshot
2018-02-23 Jim ProcterJAL-2885 xfam https features/JAL-2885UniprotHttps commit | commitdiff | tree | snapshot
2018-02-23 Jim ProcterJAL-2885 XFAM_DOMAIN->XFAM_BASEURL commit | commitdiff | tree | snapshot
2018-02-23 Jim ProcterJAL-2885 Ensembl* -> https commit | commitdiff | tree | snapshot
2018-02-23 Jim ProcterJAL-2885 ENSEMBL-DOMAIN -> ENSEMBL-BASEURL commit | commitdiff | tree | snapshot
2018-02-23 Jim ProcterJAL-2885 renamed base URL getter from getDomain.. commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterMerge branch 'feature/JAL-984splitAdjuster' into releas... commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterJAL-984 ID width adjuster needs to be white ! commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterJAL-2666 release notes commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterMerge branch 'bug/JAL-2666' into releases/Release_2_10_... commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterMerge branch 'feature/JAL-984splitAdjuster' into releas... commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterJAL-984 remove all references to idwidth.gif and use... commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterJAL-2906 typo fixes commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterJAL-984 release notes commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterMerge branch 'feature/JAL-984splitAdjuster' into releas... commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterJAL-294 remove unneeded paint() method commit | commitdiff | tree | snapshot
2018-02-22 Jim ProcterJAL-984 remove commented/unnecessary if clause commit | commitdiff | tree | snapshot
2018-02-21 Jim ProcterJAL-2906 release notes for 2.10.4 commit | commitdiff | tree | snapshot
2018-02-21 Jim ProcterMerge branch 'bug/JAL-2778again' into releases/Release_... commit | commitdiff | tree | snapshot
2018-02-21 Jim ProcterJAL-2778 reinstate transparent windows to avoid ugly... bug/JAL-2778again commit | commitdiff | tree | snapshot
2018-02-21 kiramtJAL-2778 Adjust cursor changes in overview panel commit | commitdiff | tree | snapshot
2018-02-21 kiramtJAL-2778 Revert back to old synchronisation commit | commitdiff | tree | snapshot
2018-02-20 Jim ProcterMerge branch 'bugs/JAL-2780_JAL-2781_pdbnegativenums... commit | commitdiff | tree | snapshot
2018-02-15 Jim ProcterMerge branch 'develop' into releases/Release_2_10_4_Branch commit | commitdiff | tree | snapshot
2018-02-15 Jim ProcterJAL-2906 bump release version and cut new release note... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2780 scan all test IDs before testing and reporting... bugs/JAL-2780_JAL-2781_pdbnegativenums commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2780 SequenceI.findFeatures takes column numbers... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2780 JAL-2781 don’t create a mapping if sequence... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2780 JAL-2781 only create a mapping entry or write... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 JAL-2780 include sequence start number when... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 ensure Trim is disabled before test starts commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 refactor ‘trim retrieved sequence’ preference... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 null local siftsClient variable if exception... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 refactor StructureSelectionManager.siftsClient... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 FIXME: value of sourceType parameter always... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 refactor possibly non-functional ‘extract... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 tidy up comments on getMapping/computeMapping commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2781 report exactly which residues do not receive... commit | commitdiff | tree | snapshot
2018-02-13 Jim ProcterJAL-2905 added additional jvmarg for testng task condit... commit | commitdiff | tree | snapshot
2018-02-12 Jim ProcterJAL-2780 JAL-2781 extra column in mapping array commit | commitdiff | tree | snapshot
2018-02-12 Jim ProcterJAL-2904 JAL-2780 JAL-2781 update JmolCommandsTest... commit | commitdiff | tree | snapshot
2018-02-12 Jim ProcterJAL-2780 JAL-2781 ahem - add a semicolon if there isn... commit | commitdiff | tree | snapshot
2018-02-12 Jim ProcterJAL-2780 use value of ’UNASSIGNED’ constant in assert... commit | commitdiff | tree | snapshot
2018-02-12 Jim ProcterJAL-2904 replaced assert for (getEnd()-getStart()+1... commit | commitdiff | tree | snapshot
2018-02-11 Jim ProcterJAL-2781 use SIFTs mapping rather than maxChain AlignSe... commit | commitdiff | tree | snapshot
2018-02-11 Jim ProcterJAL-2780 JAL-2781 use PDBe numbering to map between... commit | commitdiff | tree | snapshot
2018-02-11 Jim ProcterJAL-2781 mark aligned positions via StructureMapping... commit | commitdiff | tree | snapshot
2018-02-11 Jim ProcterJAL-2780 JAL-2781 include a Mapping object in Structure... commit | commitdiff | tree | snapshot
2018-02-11 Jim ProcterJAL-2780 JAL-2781 UNASSIGNED positions marked as Intege... commit | commitdiff | tree | snapshot
2018-02-11 Jim ProcterJAL-2781 fix test data for full length annotation commit | commitdiff | tree | snapshot
2018-02-09 gmungocJAL-2789 avoid using transcript (with no UTR) as CDS... bug/JAL-2666 commit | commitdiff | tree | snapshot
2018-02-09 gmungocJAL-2789 code format changes only (before functional... commit | commitdiff | tree | snapshot
2018-02-09 gmungocJAL-2666 fix failure to scroll split alignment of height 1 commit | commitdiff | tree | snapshot
2018-02-09 Jim ProcterUse the “PDBe” or “PDB” numbering (starts from 1, corre... commit | commitdiff | tree | snapshot
2018-02-09 Jim ProcterJAL-2780 JAL-2781 should always ensure SIFTS mappings... commit | commitdiff | tree | snapshot
2018-02-08 gmungocJAL-2666 basic initial fix for split screen scroll bug commit | commitdiff | tree | snapshot
2018-02-07 Jim ProcterJAL-2780 JAL-2781 run sequentially and ensure windows... commit | commitdiff | tree | snapshot
2018-02-07 Jim ProcterJAL-2780 JAL-2891 clear all windows always beforeTest... commit | commitdiff | tree | snapshot
2018-02-07 Jim ProcterJAL-2902 catch case where viewer is closed (therefore... commit | commitdiff | tree | snapshot
2018-02-07 Jim ProcterJAL-2902 thread off dialog close op to avoid deadlock... commit | commitdiff | tree | snapshot
2018-02-07 Jim ProcterJAL-2780 JAL-2781 first pass at failing test for incorr... commit | commitdiff | tree | snapshot
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