Merge branch 'develop' of http://source.jalview.org/git/jalview into develop
[jalview.git] / test / jalview / datamodel /
2017-09-25 gmungocJAL-2525 return no features if none matches ontology...
2017-09-22 kiramtJAL-2674 add bounds to findHiddenRegionPositions
2017-09-21 kiramtJAL-2674 unit test for gapBitSet
2017-09-21 kiramtJAL-2674 Reset tests
2017-09-20 kiramtJAL-2674 fix up interface of locateVisibleBoundsOfSequence
2017-09-20 kiramtJAL-2674 Transferred updated unit tests from first...
2017-08-23 gmungocJAL-2481 a smidgin more test coverage of findFeatures
2017-08-23 gmungocJAL-2682 non-regex sequence id parsing, and tests added
2017-07-24 gmungocspike branch updated from latest features/JAL-2446
2017-07-19 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-07-05 gmungocJAL-147 additions to unit test, check for negative...
2017-07-05 gmungocJAL-147 prevent overview box move up over hidden first...
2017-06-30 gmungocJAL-2505 correct handling of change of feature type
2017-06-30 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-06-29 kiramtJAL-2597 Fix and unit test bug/JAL-2597
2017-06-27 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-06-24 gmungocJAL-2547 fix case of gap followed by enclosing contact...
2017-06-22 gmungocJAL-2481 JAL-2593 JAL-2526 further optimisation of...
2017-06-22 gmungocJAL-2480 simpler and safer test to avoid adding duplicates
2017-06-21 gmungocJAL-2480 tidy generic initialisations, SequenceFeatures...
2017-06-15 gmungocMerge branch 'bug/JAL-2386groupConservationColouring...
2017-06-14 gmungocJAL-2598 Sequence.getSequence return a copy of the...
2017-06-09 gmungocJAL-2446 merged to spike branch
2017-06-08 gmungocJAL-2526 correct boundary conditions for sequence left...
2017-06-08 gmungocJAL-2386 JAL-2570 use ResidueShader copy constructor... bug/JAL-2386groupConservationColouring
2017-06-08 kiramtJAL-2591 Refactor HiddenColumns to use ArrayList instea...
2017-06-08 kiramtJAL-2591 More HiddenColumns refactoring. Tests passing.
2017-06-08 gmungocJAL-2526 cache first/last residue column positions...
2017-06-07 kiramtJAL-2591 Further refactoring (still incomplete)
2017-06-07 kiramtJAL-2591 More refactoring (incomplete)
2017-06-07 kiramtJAL-2591 Hidden columns regions can be output to string...
2017-06-07 kiramtJAL-2591 updated HiddenColumns::findHiddenRegionPositio...
2017-06-07 gmungocJAL-2386 ensure group conservation shading is applied...
2017-06-05 gmungocJAL-2480 remove redundant method, further test coverage
2017-06-05 gmungocMerge branch 'features/JAL-2526sequenceCursor' into
2017-06-05 gmungocMerge branch 'features/JAL-2446NCList' into
2017-06-05 gmungocMerge branch 'features/JAL-2446NCList' into features/JAL-2526sequenceCursor
2017-06-05 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-06-04 Jim ProcterJAL-2291 get bitset representing hidden columns
2017-06-04 Jim ProcterJAL-2291 method taking a BitSet for hiding columns
2017-06-04 Jim ProcterJAL-2291 fixed broken asserts for SequenceI.getInsertio...
2017-06-04 Jim ProcterJAL-2291 SequenceI.getInsertionsAsBits for convenient...
2017-06-02 gmungocJAL-2526 additional tests for findPosition with/without...
2017-06-01 gmungocJAL-2754 Sequence.findFeatures(fromCol, toCol) features/JAL-2754findFeaturesByColumn
2017-05-30 gmungocMerge branch 'features/JAL-2446NCList' into features...
2017-05-30 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-05-30 gmungocJAL-2570 don't zap group colour scheme when mapping...
2017-05-30 gmungocJAL-2526 first draft of findIndex/findPosition with...
2017-05-29 gmungocJAL-2526 Sequence.findPositions to get residue position...
2017-05-26 gmungocJAL-2480 move ContiguousI and Range to jalview.datamodel
2017-05-25 gmungocJAL-2557 removal of Sequence.sequenceFeatures
2017-05-25 gmungocJAL-2050 make SequenceFeature.score final, adjust const...
2017-05-24 gmungocJAL-2505 make SequenceFeature type, begin, end, feature...
2017-05-24 gmungocJAL-2505 remove setters for SequenceFeature.begin,end...
2017-05-24 gmungocMerge branch 'bug/JAL-2541cutWithFeatures' into feature...
2017-05-24 gmungocJAL-2505 JAL-2542 SequenceFeatures.shift() to shift...
2017-05-24 kiramtJAL-2034 Added isDefined flag to SequenceGroup
2017-05-23 gmungocJAL-2490 unit tests for getFeaturesForGroup
2017-05-23 gmungocJAL-2490 tidy code and tests for feature export in...
2017-05-22 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-05-22 gmungocJAL-2480 always include all non-positional features...
2017-05-18 gmungocJAL-2541 fix to initSeqFrom (and minor code tidy);...
2017-05-18 kiramtJAL-2256 Corrected AllCols/Rows iterator behaviour... bug/JAL-2256
2017-05-16 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-05-16 Jim ProcterMerge branch 'bug/JAL-2507_rnasecstrstockholm' into...
2017-05-15 Jim ProcterJAL-2507 fix test: knockon from capitalisation on secon... bug/JAL-2507_rnasecstrstockholm
2017-05-15 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-05-12 gmungocJAL-2525 get sequence features for Ontology term(s...
2017-05-12 gmungocJAL-2480 more efficient contains check on add; tidied...
2017-05-09 gmungocJAL-2480 include sequenceFeatureStore in createDatasetS...
2017-05-08 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-05-05 kiramtMerge remote-tracking branch
2017-05-05 kiramtMerge remote-tracking branch 'origin/develop' into features/JAL-2388hiddencolumnschanges
2017-05-05 kiramtMerge remote-tracking branch 'origin/develop' into
2017-05-03 Jim ProcterJAL-2503 AlignmentAnnotation.isQuantitative() test
2017-05-03 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-05-02 Jim ProcterMerge branch 'bug/JAL-2424getVisibleContigs' into develop
2017-04-28 gmungocMerge branch 'develop' into features/JAL-2446NCList
2017-04-27 Jim ProcterJAL-2494 test to cover AnnotatedCollectionI.findAnnotat...
2017-04-27 gmungocJAL-2492 use SequenceFeatures.getNonPositionalFeatures()
2017-04-27 gmungocJAL-2480 don't allow null type in SequenceFeature
2017-04-26 kiramtMerge remote-tracking branch 'origin/features/JAL-2388h...
2017-04-26 kiramtJAL-2388 last separation of hidden columns/col selection
2017-04-25 kiramtJAL-2388 Working hidden regions hide/show in desktop
2017-04-24 kiramtMerge remote-tracking branch
2017-04-24 kiramtJAL-2388 Finished split of hidden columns and selected...
2017-04-24 gmungocJAL-2424 final contig now an inclusive range bug/JAL-2424getVisibleContigs
2017-04-24 kiramtJAL-2388 Hidden cols separated from column selection...
2017-04-21 kiramtJAL-2388 Alignment col and row collections with iterators
2017-04-20 gmungocJAL-2483 JAL-2481 findAllFeatures without scanning...
2017-04-19 gmungocJAL-2480 cache min-max score values per sequence and...
2017-04-19 kiramtMerge remote-tracking branch 'origin/develop' into
2017-04-19 gmungocJAL-2483 use SequenceFeatures to look up groups, types...
2017-04-18 gmungocJAL-2480 subtract from total length on deleting feature
2017-04-18 gmungocJAL-2480 more test coverage
2017-04-18 gmungocJAL-2480 test coverage / bug fixes / javadoc
2017-04-18 gmungocJAL-2480 SequenceFeaturesI encapsulates features api
2017-04-17 gmungocJAL-2446 promote Range from test to src to replace...
2017-04-17 gmungocJAL-2446 tidied up / generalised binary search in Featu...
2017-04-17 gmungocJAL-2446 add call to SequenceFeatures.delete(); use...
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