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JAL-2757 fix PDB also; suppress stack trace and compiler warnings
[jalview.git] / src / jalview / datamodel /
2017-09-25 gmungocJAL-2525 return no features if none matches ontology... tree | commitdiff
2017-09-05 Jim ProcterMerge branch 'master' into portforward/JAL-2675_2102b1t... tree | commitdiff
2017-09-04 Jim ProcterJAL-2675 source license tree | commitdiff
2017-09-03 Jim ProcterMerge branch 'bug/JAL-2665-2.10.2b' into documentation... bug/JAL-2673_mergewithproblem tree | commitdiff
2017-09-03 Jim ProcterMerge branch 'documentation/JAL-2675_release2102b1... tree | commitdiff
2017-09-03 Jim ProcterMerge branch 'feature/JAL-2527' into documentation... tree | commitdiff
2017-08-30 kiramtMerge branch 'feature/JAL-2664' into feature/JAL-2527 tree | commitdiff
2017-08-29 kiramtJAL-2664 Updates following review feature/JAL-2664 tree | commitdiff
2017-08-28 kiramtMerge remote-tracking branch 'origin/develop' into... tree | commitdiff
2017-08-28 kiramtMerge remote-tracking branch 'origin/releases/Release_2... tree | commitdiff
2017-08-28 kiramtJAL-2665 Changes for review comments; printing with... bug/JAL-2665 tree | commitdiff
2017-08-22 Jim ProcterJAL-1551 formatting tree | commitdiff
2017-08-21 gmungocMerge branch 'develop' into features/JAL-2446NCList features/JAL-2446NCList tree | commitdiff
2017-08-16 Jim ProcterJAL-2418 source formatting tree | commitdiff
2017-08-16 kiramtJAL-2665 Added hidden columns group selection - almost... tree | commitdiff
2017-08-16 kiramtJAL-2665 Added sequence group update event. tree | commitdiff
2017-08-09 gmungocJAL-2480 inline one method, improve comments tree | commitdiff
2017-08-01 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-07-22 kiramtMerge branch 'develop' into feature/JAL-2611 tree | commitdiff
2017-07-19 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-07-13 kiramtJAL-2613 Unit tests and a fix. Phew. tree | commitdiff
2017-07-05 gmungocJAL-147 additions to unit test, check for negative... tree | commitdiff
2017-07-05 gmungocJAL-147 prevent overview box move up over hidden first... tree | commitdiff
2017-06-30 gmungocJAL-2505 correct handling of change of feature type tree | commitdiff
2017-06-30 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-06-29 kiramtJAL-2597 Fix and unit test bug/JAL-2597 tree | commitdiff
2017-06-27 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-06-24 gmungocJAL-2547 fix case of gap followed by enclosing contact... tree | commitdiff
2017-06-23 gmungocJAL-1858 handle hidden columns when computing region... tree | commitdiff
2017-06-22 gmungocJAL-2481 JAL-2593 JAL-2526 further optimisation of... tree | commitdiff
2017-06-22 gmungocJAL-2480 simpler and safer test to avoid adding duplicates tree | commitdiff
2017-06-21 gmungocJAL-2480 tidy generic initialisations, SequenceFeatures... tree | commitdiff
2017-06-20 gmungocJAL-2526 don't retain lastColumnPosition from an invali... tree | commitdiff
2017-06-15 gmungocMerge branch 'bug/JAL-2386groupConservationColouring... tree | commitdiff
2017-06-14 gmungocJAL-2598 Sequence.getSequence return a copy of the... tree | commitdiff
2017-06-12 kiramtJAL-2591 Updates following code review tree | commitdiff
2017-06-09 gmungocJAL-2480 tidy javadoc tree | commitdiff
2017-06-08 gmungocJAL-2526 correct boundary conditions for sequence left... tree | commitdiff
2017-06-08 gmungocJAL-2386 JAL-2570 use ResidueShader copy constructor... bug/JAL-2386groupConservationColouring tree | commitdiff
2017-06-08 kiramtJAL-2591 Refactor HiddenColumns to use ArrayList instea... tree | commitdiff
2017-06-08 kiramtJAL-2591 More HiddenColumns refactoring. Tests passing. tree | commitdiff
2017-06-08 gmungocJAL-2526 cache first/last residue column positions... tree | commitdiff
2017-06-08 gmungocJAL-2526 reuse findIndex result if start==end tree | commitdiff
2017-06-07 kiramtJAL-2591 Further refactoring (still incomplete) tree | commitdiff
2017-06-07 kiramtJAL-2591 More refactoring (incomplete) tree | commitdiff
2017-06-07 kiramtJAL-2591 Hidden columns regions can be output to string... tree | commitdiff
2017-06-07 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-06-07 kiramtJAL-2591 updated HiddenColumns::findHiddenRegionPositio... tree | commitdiff
2017-06-07 gmungocJAL-2386 ensure group conservation shading is applied... tree | commitdiff
2017-06-07 kiramtJAL-2591 simplifying hidden columns usage tree | commitdiff
2017-06-06 kiramtJAL-2591 Added readwrite locking on HiddenColumns tree | commitdiff
2017-06-06 gmungocJAL-2526 less stringent test for invalid cursor tree | commitdiff
2017-06-06 kiramtMerge remote-tracking branch 'origin/bug/JAL-2576'... tree | commitdiff
2017-06-05 Jim ProcterMerge branch 'bug/JAL-2576' into develop tree | commitdiff
2017-06-05 gmungocJAL-2505 comments updated tree | commitdiff
2017-06-05 gmungocJAL-2480 remove redundant method, further test coverage tree | commitdiff
2017-06-05 gmungocJAL-2505 explicit (and final) contactFeature property tree | commitdiff
2017-06-05 gmungocMerge branch 'features/JAL-2526sequenceCursor' into tree | commitdiff
2017-06-05 gmungocMerge branch 'features/JAL-2446NCList' into tree | commitdiff
2017-06-05 gmungocMerge branch 'features/JAL-2446NCList' into features/JAL-2526sequenceCursor tree | commitdiff
2017-06-05 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-06-04 Jim ProcterJAL-2291 get bitset representing hidden columns tree | commitdiff
2017-06-04 Jim ProcterJAL-2291 method taking a BitSet for hiding columns tree | commitdiff
2017-06-04 Jim ProcterJAL-2291 bug fix - BitSet.set is [start,end+1) tree | commitdiff
2017-06-04 Jim ProcterJAL-2291 SequenceI.getInsertionsAsBits for convenient... tree | commitdiff
2017-06-02 gmungocJAL-2526 additional tests for findPosition with/without... tree | commitdiff
2017-06-02 kiramtJAL-2576 Proposed fix bug/JAL-2576 tree | commitdiff
2017-06-02 gmungocMerge branch 'features/JAL-2446NCList' into features... tree | commitdiff
2017-06-01 gmungocJAL-2526 additional calls to sequenceChanged() after... tree | commitdiff
2017-06-01 gmungocJAL-2526 zapCursor() renamed sequenceChanged() tree | commitdiff
2017-06-01 gmungocMerge branch 'features/JAL-2446NCList' into features... tree | commitdiff
2017-06-01 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-06-01 gmungocJAL-2754 Sequence.findFeatures(fromCol, toCol) features/JAL-2754findFeaturesByColumn tree | commitdiff
2017-05-31 Jim ProcterMerge branch 'JAL-2571' into develop tree | commitdiff
2017-05-30 kiramtJAL-2571 Corrected alignment width/height checks to... tree | commitdiff
2017-05-30 gmungocMerge branch 'features/JAL-2446NCList' into features... tree | commitdiff
2017-05-30 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-05-30 gmungocJAL-2570 don't zap group colour scheme when mapping... tree | commitdiff
2017-05-30 gmungocJAL-2526 first draft of findIndex/findPosition with... tree | commitdiff
2017-05-29 Jim ProcterMerge branch 'bug/JAL-2034contextchange' into develop tree | commitdiff
2017-05-29 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-05-29 gmungocJAL-2526 Sequence.findPositions to get residue position... tree | commitdiff
2017-05-27 Jim ProcterJAL-2562 javadoc TODO tree | commitdiff
2017-05-26 gmungocJAL-2480 move ContiguousI and Range to jalview.datamodel tree | commitdiff
2017-05-25 gmungocJAL-2557 removal of Sequence.sequenceFeatures tree | commitdiff
2017-05-25 gmungocJAL-2050 make SequenceFeature.score final, adjust const... tree | commitdiff
2017-05-25 gmungocJAL-2505 simplifying number of SequenceFeature construc... tree | commitdiff
2017-05-24 gmungocJAL-2505 make SequenceFeature type, begin, end, feature... tree | commitdiff
2017-05-24 gmungocJAL-2506 relocate Uniprot binding classes, bind to... tree | commitdiff
2017-05-24 gmungocJAL-2505 remove setters for SequenceFeature.begin,end... tree | commitdiff
2017-05-24 gmungocMerge branch 'bug/JAL-2541cutWithFeatures' into feature... tree | commitdiff
2017-05-24 gmungocJAL-2505 JAL-2542 SequenceFeatures.shift() to shift... tree | commitdiff
2017-05-24 kiramtJAL-2034 Added isDefined flag to SequenceGroup tree | commitdiff
2017-05-23 gmungocJAL-2490 tidy code and tests for feature export in... tree | commitdiff
2017-05-23 gmungocJAL-2480 methods to get features for group tree | commitdiff
2017-05-22 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-05-22 gmungocJAL-2480 always include all non-positional features... tree | commitdiff
2017-05-22 kiramtMerge remote-tracking branch 'origin/bug/JAL-2256'... tree | commitdiff
2017-05-22 Jim ProcterJAL-2418 patch build - broken htsjdk import tree | commitdiff
2017-05-18 Jim ProcterJAL-2388 return empty hidden columns for fully visible... tree | commitdiff
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