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jalview.git
2015-02-02 Jim ProcterJAL-1640 copy constructor test and implementation by... commit | commitdiff | tree | snapshot
2015-02-02 Jim ProcterJAL-715 tweaks for SRBS description string parsing commit | commitdiff | tree | snapshot
2015-02-02 Jim ProcterJAL-1161 JAL-1606 note about awt/swing dependency in... commit | commitdiff | tree | snapshot
2015-02-02 Charles OfoegbuMerge commit commit | commitdiff | tree | snapshot
2015-02-02 Charles OfoegbuJAL-1644 revised Finder's implementation to use a flag... commit | commitdiff | tree | snapshot
2015-02-02 Jim ProcterJAL-1640 JAL-1551 formatting/imports/remove dead code commit | commitdiff | tree | snapshot
2015-02-02 Jim ProcterJAL-1640 updates to use get/setter on viewportI: effici... commit | commitdiff | tree | snapshot
2015-02-02 Jim ProcterJAL-1640 separated style operations into a new ViewStyl... commit | commitdiff | tree | snapshot
2015-02-02 Charles OfoegbuMerge branch 'bug/JAL-1644_Finder-logic-improvement... commit | commitdiff | tree | snapshot
2015-02-02 Charles OfoegbuJAL-1644 improvment of finder logic to include the... commit | commitdiff | tree | snapshot
2015-01-30 gmungocJAL-845 linked protein/dna 'slave' further PoC function... features/JAL-845linkedProteinDnaEditing commit | commitdiff | tree | snapshot
2015-01-28 Jim ProcterJAL-1565 automatically mark query sequence as the seque... commit | commitdiff | tree | snapshot
2015-01-28 Jim Procter JAL-674 patch to make Mapping.compareTransferredToR... commit | commitdiff | tree | snapshot
2015-01-27 Jim ProcterJAL-674 JAL-1270 added settings to ensure temperature... commit | commitdiff | tree | snapshot
2015-01-27 gmungocJAL-1588 new class renamed commit | commitdiff | tree | snapshot
2015-01-26 gmungocMerge branch 'features/JAL-1588saveChimeraSession'... commit | commitdiff | tree | snapshot
2015-01-26 gmungocJAL-1588 restoring saved Chimera session(s) commit | commitdiff | tree | snapshot
2015-01-23 Charles OfoegbuMerge branch 'features/JAL-1553_improvement-select... commit | commitdiff | tree | snapshot
2015-01-23 gmungocJAL-1588 first working (?) restore of Chimera session... commit | commitdiff | tree | snapshot
2015-01-23 Charles OfoegbuJAL-1553 added help documentation and updated Annotatio... features/JAL-1553_improvement-select-column-by-annotation-row-query-interface commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterMerge branch 'feature_29/JAL-1372_referenceseq' into... commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1541 changed assert to JUnit assert - test now... commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1551 formatting commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1286 don't print an exception if a non-gzip stream... commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1551 crlf changes commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-969 hasHiddenRows is now an interface method commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-969 drop the hiddenColumns flag in favour of checki... commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterMerge branch 'develop' into feature_29/JAL-1372_referen... commit | commitdiff | tree | snapshot
2015-01-23 gmungocJAL-1619 javadoc/tidy commit | commitdiff | tree | snapshot
2015-01-23 gmungocJAL-1635 show warning if less than 3 columns selected... commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1628 tweak signature of core annotation printer... commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1551 formatting/imports commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1551 JAL-962 formatting and code change ripples... commit | commitdiff | tree | snapshot
2015-01-23 gmungocRandom DNA generator tarted up commit | commitdiff | tree | snapshot
2015-01-23 Charles OfoegbuMerge branch 'features/JAL-1553_improvement-select... commit | commitdiff | tree | snapshot
2015-01-23 Charles OfoegbuMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2015-01-23 Charles OfoegbuJAL-1553 fixed null pointer exception thrown in SeqCanv... commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1551 source code formatting commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-969 javadoc and mark interface overrides for clarity commit | commitdiff | tree | snapshot
2015-01-23 Jim ProcterJAL-1628 drop getShowAnnotation accessor in favour... commit | commitdiff | tree | snapshot
2015-01-22 Charles OfoegbuMerge branch 'features/JAL-1553_improvement-select... commit | commitdiff | tree | snapshot
2015-01-22 Charles OfoegbuJAL-1553 added applet support for the select-column... commit | commitdiff | tree | snapshot
2015-01-22 Jim ProcterJAL-1372 JAL-1169 documentation for new commands HIDE_I... commit | commitdiff | tree | snapshot
2015-01-22 gmungocJAL-1619 refactoring / tests to support 'align linked... commit | commitdiff | tree | snapshot
2015-01-21 Jim ProcterMerge branch 'develop' into feature_29/JAL-1372_referen... commit | commitdiff | tree | snapshot
2015-01-21 Jim Proctertidy up class files that shouldn't be in repo commit | commitdiff | tree | snapshot
2015-01-20 Charles OfoegbuMerge branch 'features/JAL-1553_improvement-select... commit | commitdiff | tree | snapshot
2015-01-20 Charles Ofoegbuclean up commit | commitdiff | tree | snapshot
2015-01-20 Charles Ofoegbuclean up commit | commitdiff | tree | snapshot
2015-01-20 Charles OfoegbuMerge branch 'features/JAL-1553_improvement-select... commit | commitdiff | tree | snapshot
2015-01-20 Charles OfoegbuFurther abstractions and clean up commit | commitdiff | tree | snapshot
2015-01-20 Charles OfoegbuMerge branch 'features/JAL-1553_improvement-select... commit | commitdiff | tree | snapshot
2015-01-20 Charles Ofoegbubasic house keeping commit | commitdiff | tree | snapshot
2015-01-20 Jim ProcterJAL-1304 revamped annotation file documentation structu... commit | commitdiff | tree | snapshot
2015-01-20 Charles OfoegbuMerge branch 'features/JAL-1553_improvement-select... commit | commitdiff | tree | snapshot
2015-01-20 Charles OfoegbuJAL-1553 enhancement of column selection by annotation... commit | commitdiff | tree | snapshot
2015-01-20 gmungocJAL-1619 test that reordering cDNA does not change... commit | commitdiff | tree | snapshot
2015-01-20 gmungocJAL-1619 tweaked for better reusability commit | commitdiff | tree | snapshot
2015-01-19 gmungocJAL-1619 refactored cDNA translation; modified codon... commit | commitdiff | tree | snapshot
2015-01-19 gmungocJAL-1636 typed collections now in ResidueProperties commit | commitdiff | tree | snapshot
2015-01-19 gmungocJAL-1636 fix for mouseover of 'X' in translated protein commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1372 i18n and tweaking set/unset representative... commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1628 formatting commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1628 employ new AnnotationFile reader method to... commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1628 new entry point for reading annotation files... commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1628 formatting and javadoc commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1628 method to hide insertions to current sequence... commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1628 wrappers for common checks on ColumnSelection commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1628 ColumnSelection method to hide insertions... commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1628 new method to get a list of insertions in... commit | commitdiff | tree | snapshot
2015-01-18 Jim Procteralways use interface rather than field access commit | commitdiff | tree | snapshot
2015-01-18 gmungocJAL-1619 refactoring wip commit | commitdiff | tree | snapshot
2015-01-18 Jim ProcterJAL-1372 JAL-1114 JAL-1628 tidy sequenceI/sequence commit | commitdiff | tree | snapshot
2015-01-17 gmungocJAL-1619 further refactoring commit | commitdiff | tree | snapshot
2015-01-16 gmungocJAL-1619 refactoring in progress for Dna translation commit | commitdiff | tree | snapshot
2015-01-14 gmungocJAL-1619 AlignedCodonFrame in new alignment should... commit | commitdiff | tree | snapshot
2015-01-14 gmungocJAL-1619 modified repaint after 'Align As' action commit | commitdiff | tree | snapshot
2015-01-14 gmungocJAL-1619 Javadoc commit | commitdiff | tree | snapshot
2015-01-14 gmungocJAL-1629 .jar option removed from Alignment File Save... commit | commitdiff | tree | snapshot
2015-01-14 Charles OfoegbuMerge branch 'features/JAL-1553_select-columns-by-annot... commit | commitdiff | tree | snapshot
2015-01-14 Charles OfoegbuModified AnnotationColumnChooser to maintain state... features/JAL-1553_select-columns-by-annotation commit | commitdiff | tree | snapshot
2015-01-13 Charles OfoegbuMerge branch 'features/JAL-1553_select-columns-by-annot... commit | commitdiff | tree | snapshot
2015-01-13 Charles OfoegbuRefactored AnnotationColumnChoser and AnnotationColorCh... commit | commitdiff | tree | snapshot
2015-01-12 gmungocJAL-1619 load/align cDNA for protein (wip) commit | commitdiff | tree | snapshot
2015-01-10 Charles OfoegbuJAL-1553 merge commit commit | commitdiff | tree | snapshot
2015-01-10 Charles OfoegbuJAL-1553 implementation of column selection by annotati... commit | commitdiff | tree | snapshot
2015-01-09 Jim ProcterMerge branch 'JAL-1372_referenceseq' into feature_29... commit | commitdiff | tree | snapshot
2015-01-09 Charles OfoegbuMerge branch 'features/JAL-1605_html-svg-export' into... commit | commitdiff | tree | snapshot
2015-01-09 Jim ProcterMerge branch 'JAL-1483_29dev' into develop commit | commitdiff | tree | snapshot
2015-01-09 Jim ProcterJAL-1483 formatting commit | commitdiff | tree | snapshot
2015-01-09 Jim ProcterJAL-1483 remember to look at base dataset sequence... commit | commitdiff | tree | snapshot
2015-01-09 gmungocJAL-1588 check Chimera session file still exists commit | commitdiff | tree | snapshot
2015-01-08 gmungocJAL-1588 part work save/restore of Chimera session commit | commitdiff | tree | snapshot
2015-01-08 Jim ProcterMerge branch 'JAL-1483_29dev' into develop commit | commitdiff | tree | snapshot
2015-01-07 Jim ProcterMerge branch 'develop' into JAL-1483_29dev commit | commitdiff | tree | snapshot
2015-01-07 Jim ProcterJAL-1483 patches to make test case pass: hamming distan... commit | commitdiff | tree | snapshot
2015-01-07 Jim ProcterJAL-1483 basic test of sequence similarity score model... commit | commitdiff | tree | snapshot
2015-01-07 Jim ProcterJAL-1483 source formatting commit | commitdiff | tree | snapshot
2015-01-07 Jim ProcterJAL-1483 refactor NJTree constructor to allow preconfig... commit | commitdiff | tree | snapshot
2015-01-07 Jim ProcterJAL-1483 register feature similarity model commit | commitdiff | tree | snapshot
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