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jalview.git
2015-06-28 Jim ProcterJAL-1705 javadoc commit | commitdiff | tree | snapshot
2015-06-28 Jim ProcterJAL-1705 renamed test for refactored class commit | commitdiff | tree | snapshot
2015-06-28 Jim ProcterJAL-1705 concrete classes for different ENSEMBL sequenc... commit | commitdiff | tree | snapshot
2015-06-28 Jim ProcterJAL-1705 renamed SeqFetcherTest to EnsemblSeqProxyTest commit | commitdiff | tree | snapshot
2015-06-26 Jim ProcterJAL-1705 basic client & tests for rest.ensembl.org... commit | commitdiff | tree | snapshot
2015-06-26 Jim ProcterJAL-1705 - allow a FileParse to be constructed directly... commit | commitdiff | tree | snapshot
2015-06-25 Jim ProcterJAL-1691 avoid NPE when original split frame has been... commit | commitdiff | tree | snapshot
2015-06-25 Jim ProcterJAL-1780 JAL-653 JAL-1892 brackets in wrong place broke... commit | commitdiff | tree | snapshot
2015-06-24 Jim ProcterMerge branch 'features/JAL-1370_patchshowunconserved... commit | commitdiff | tree | snapshot
2015-06-24 Jim ProcterJAL-1790 fix: javac.source=1.7 and javac.target=1.7... commit | commitdiff | tree | snapshot
2015-06-24 Jim ProcterJAL-653 JAL-1780 JAL-1892 fix jalviewLite compilation commit | commitdiff | tree | snapshot
2015-06-24 Jim ProcterMerge branch 'merge/develop_JAL-1780_JAL-653_JAL-1892... commit | commitdiff | tree | snapshot
2015-06-23 Jim ProcterJAL-1780 JAL-653 jim forgot to put the conditional... merge/develop_JAL-1780_JAL-653_JAL-1892 commit | commitdiff | tree | snapshot
2015-06-23 Jim ProcterJAL-1782 JAL-1780 JAL-653 JAL-1892 update patched refac... commit | commitdiff | tree | snapshot
2015-06-22 Jim ProcterJAL-1270 fix logic in stockholm test allowing annotatio... commit | commitdiff | tree | snapshot
2015-06-22 Jim ProcterJAL-653 JAL-1780 JAL-1140 added RNAML example alignment... commit | commitdiff | tree | snapshot
2015-06-22 Jim ProcterJAL-653 JAL-1780 dropped unnecessary refs commit | commitdiff | tree | snapshot
2015-06-22 Jim ProcterJAL-1780 JAL-653 Format/AppletFormat import and export... commit | commitdiff | tree | snapshot
2015-06-22 Jim ProcterJAL-653 JAL-1780 reorder imports commit | commitdiff | tree | snapshot
2015-06-19 Jim ProcterJAL-653 JAL-1780 refactor getGroups so HTMLfile/JSONfil... commit | commitdiff | tree | snapshot
2015-06-19 Jim ProcterJAL-1780 JAL-653 organise imports commit | commitdiff | tree | snapshot
2015-06-19 Jim ProcterJAL-653 JAL-1780 minimise call rate now av.hasHiddenRow... commit | commitdiff | tree | snapshot
2015-06-19 Jim ProcterJAL-653 JAL-1780 dropped av.setHasHiddenRows() and... commit | commitdiff | tree | snapshot
2015-06-19 tcofoegbuJAL-1270 test suits import order refactor features/JAL-1270_JUnit-to-TestNG features/JAL-1782_JUnit-to-TestNG commit | commitdiff | tree | snapshot
2015-06-19 Jim ProcterJAL-1780 JAL-653 organise imports commit | commitdiff | tree | snapshot
2015-06-19 tcofoegbuJAL-1270 JUnit to TestNG refactoring commit | commitdiff | tree | snapshot
2015-06-18 Jim ProcterJAL-653 patch broken test code - test still not passing commit | commitdiff | tree | snapshot
2015-06-18 Jim ProcterJAL-653 JAL-1780 JAL-1543 javadoc and comment about... commit | commitdiff | tree | snapshot
2015-06-18 Jim ProcterJAL-653 JAL-1780 javadoc for FeatureRenderer prior... commit | commitdiff | tree | snapshot
2015-06-18 Jim ProcterJAL-1780 JAL-653 moved AlignExportSettings reference... commit | commitdiff | tree | snapshot
2015-06-17 Jim ProcterJAL-1784 minimise data duplication, and report out... commit | commitdiff | tree | snapshot
2015-06-17 Jim ProcterJAL-1784 refactor parse method to directly parse FilePa... commit | commitdiff | tree | snapshot
2015-06-17 Jim ProcterMerge branch 'features/JAL-653_gffalignments' into... commit | commitdiff | tree | snapshot
2015-06-17 Jim ProcterMerge branch 'develop' into features/JAL-653_gffalignments features/JAL-653_gffalignments commit | commitdiff | tree | snapshot
2015-06-17 Jim ProcterMerge branch 'develop' into features/JAL-1780_export... commit | commitdiff | tree | snapshot
2015-06-17 Jim ProcterJAL-1783 add java 1.7 and 1.8 class numbers commit | commitdiff | tree | snapshot
2015-06-17 Jim ProcterMerge branch 'develop' into features/JAL-1780_export... commit | commitdiff | tree | snapshot
2015-06-17 tcofoegbuJAL-1780 more support for export setting for flatfile... features/JAL-1780_export-settings_flatfile commit | commitdiff | tree | snapshot
2015-06-17 tcofoegbuJAL-1780 Export settings for flatfile output commit | commitdiff | tree | snapshot
2015-06-17 gmungocJAL-1588 restore ChimeraViewFrame geometry as well commit | commitdiff | tree | snapshot
2015-06-17 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2015-06-17 gmungocJAL-1778 reinstated this.ssm to handle 'close all windo... commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterMerge branch 'bug/JAL-1775' into develop commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterJAL-1665 patch for regression: failing jalview.ws.jabaw... commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterJAL-1775 patch for regression from Anne Menard’s pseudo... commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterMerge branch 'bug/JAL-1775' into develop commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterJAL-1775 patch regression bug when displayChar is null... commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterMerge branch 'bug/JAL-1775' into develop commit | commitdiff | tree | snapshot
2015-06-15 Jim Procterfix for JAL-1775 (and reorganise imports) commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterMerge branch 'bug/JAL-1775' into develop commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterJAL-1775 test demonstrating bug commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterJAL-1775 FileLoader javadoc commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterJAL-1775 fix regression from commit 70f9c4700f20a8fa57e... commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterMerge branch 'develop' into bug/JAL-1775 commit | commitdiff | tree | snapshot
2015-06-15 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2015-06-15 gmungocJAL-1778 deregister as a listener when panel closed commit | commitdiff | tree | snapshot
2015-06-15 Jim ProcterJAL-1775 fix broken test due to missing file (RF0031_un... commit | commitdiff | tree | snapshot
2015-06-15 tcofoegbuJAL-1641 clean up commit | commitdiff | tree | snapshot
2015-06-15 tcofoegbuJAL-1641 docs for ComplexAlignFile interface commit | commitdiff | tree | snapshot
2015-06-15 tcofoegbuclean up commit | commitdiff | tree | snapshot
2015-06-12 tcofoegbumerge commit | commitdiff | tree | snapshot
2015-06-12 tcofoegbuJAL-1627 removed extra spaces at end of tooltip commit | commitdiff | tree | snapshot
2015-06-12 tcofoegbuJAL-1641 refactor commit | commitdiff | tree | snapshot
2015-06-10 tcofoegbuupdated build.xml commit | commitdiff | tree | snapshot
2015-06-10 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2015-06-10 gmungocMerge remote-tracking branch commit | commitdiff | tree | snapshot
2015-06-10 tcofoegbumerge commit | commitdiff | tree | snapshot
2015-06-10 tcofoegbuJAL-1641 updated applet version commit | commitdiff | tree | snapshot
2015-06-10 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2015-06-10 gmungocJAL-1764 save Chimera/Jmol state as separate entries... commit | commitdiff | tree | snapshot
2015-06-10 Jim ProcterJAL-1764 add structure view type attribute to project... schema/JAL-1764_structureViewAttribute commit | commitdiff | tree | snapshot
2015-06-09 tcofoegbumerge commit commit | commitdiff | tree | snapshot
2015-06-09 tcofoegbuJAL-1488 bug-fix for incorrect start/end position in... commit | commitdiff | tree | snapshot
2015-06-08 gmungocJAl-1421 fix method reflection argument (properly this... commit | commitdiff | tree | snapshot
2015-06-08 gmungocJAL-1421 undid premature 'improvement' of method parame... commit | commitdiff | tree | snapshot
2015-06-07 Jim ProcterJAL-429 remove pointless code from phylip parser features/JAL-653_rebased_gffalignments commit | commitdiff | tree | snapshot
2015-06-07 Jim ProcterJAL-653 test for GFF file recognition and alignment... commit | commitdiff | tree | snapshot
2015-06-07 Jim ProcterJAL-653 GFF recognition for identifyFile and format... commit | commitdiff | tree | snapshot
2015-06-07 Jim ProcterJAL-653 basic GFF3 alignment import wrapper class commit | commitdiff | tree | snapshot
2015-06-06 Jim ProcterJAL-653 make sure dummy sequences created during GFF... commit | commitdiff | tree | snapshot
2015-06-06 Jim ProcterJAL-653 first stab at parsing GFF3 pragmas to support... commit | commitdiff | tree | snapshot
2015-06-06 Jim ProcterJAL-653 gff version number field commit | commitdiff | tree | snapshot
2015-06-06 Jim ProcterJAL-653 test and testdata for importing GFF3 file with... commit | commitdiff | tree | snapshot
2015-06-06 Jim ProcterJAL-653 missing imports after rebase commit | commitdiff | tree | snapshot
2015-06-06 Jim ProcterJAL-653 test for SequenceDummy methods commit | commitdiff | tree | snapshot
2015-06-06 Jim ProcterJAL-653 allow a dummy sequence to take on attributes... commit | commitdiff | tree | snapshot
2015-06-05 tcofoegbuMerge branch 'bug/JAL-1760_restore-hidden-seqs' into... commit | commitdiff | tree | snapshot
2015-06-05 tcofoegbuJAL-1760 JAL-1641 Serialisation of Hidden Seqs and... commit | commitdiff | tree | snapshot
2015-06-05 Jim ProcterMerge branch 'develop' into features/JAL-653_gffalignments commit | commitdiff | tree | snapshot
2015-06-05 Jim ProcterJAL-653 abstract sequence model to support file backed... commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1752 structure highlight scoped to only its mapped... commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1588 error dialog if Chimera project opened on... commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1622 fix bug computing superposition + associated... commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1746 return empty string rather than null in getSta... commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1622 Chimera command timeout increased to 5 secs... commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1622 duplicate assignment removed (no functional... commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1753 JAL-1596 asynchronous command to Chimera ... commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1622 code tidy only, no functional change commit | commitdiff | tree | snapshot
2015-06-05 gmungocJAL-1749 correcting snafu in last commit commit | commitdiff | tree | snapshot
2015-06-05 Jim ProcterJAL-653 refactor sequence interface to separate concret... commit | commitdiff | tree | snapshot
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