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JAL-2541 clearer comments
[jalview.git]
/
src
/
jalview
/
datamodel
/
2017-06-20
gmungoc
JAL-2541 length check in deleteChars to avoid index...
tree
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commitdiff
2017-06-20
gmungoc
Merge branch 'features/JAL-2446NCList' into bug/JAL...
tree
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commitdiff
2017-06-20
gmungoc
JAL-2526 don't retain lastColumnPosition from an invali...
tree
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commitdiff
2017-06-20
gmungoc
JAL-2541 working Cut/Undo with feature relocation
tree
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commitdiff
2017-06-20
gmungoc
JAL-2526 better names for fields
tree
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commitdiff
2017-06-20
gmungoc
JAL-2480 make fiels of Range private
tree
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commitdiff
2017-06-15
gmungoc
JAL-2541 revised cut with features (work in progress)
tree
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commitdiff
2017-06-14
gmungoc
JAL-2598 Sequence.getSequence return a copy of the...
tree
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commitdiff
2017-06-09
gmungoc
JAL-2480 tidy javadoc
tree
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commitdiff
2017-06-08
gmungoc
JAL-2526 correct boundary conditions for sequence left...
tree
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commitdiff
2017-06-08
gmungoc
JAL-2526 cache first/last residue column positions...
tree
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commitdiff
2017-06-08
gmungoc
JAL-2526 reuse findIndex result if start==end
tree
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commitdiff
2017-06-07
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-06-06
gmungoc
JAL-2526 less stringent test for invalid cursor
tree
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commitdiff
2017-06-05
Jim Procter
Merge branch 'bug/JAL-2576' into develop
tree
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commitdiff
2017-06-05
gmungoc
JAL-2505 comments updated
tree
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commitdiff
2017-06-05
gmungoc
JAL-2480 remove redundant method, further test coverage
tree
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commitdiff
2017-06-05
gmungoc
JAL-2505 explicit (and final) contactFeature property
tree
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commitdiff
2017-06-05
gmungoc
Merge branch 'features/JAL-2526sequenceCursor' into
tree
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commitdiff
2017-06-05
gmungoc
Merge branch 'features/JAL-2446NCList' into
tree
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commitdiff
2017-06-05
gmungoc
Merge branch 'features/JAL-2446NCList' into
features/JAL-2526sequenceCursor
tree
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commitdiff
2017-06-05
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-06-04
Jim Procter
JAL-2291 get bitset representing hidden columns
tree
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commitdiff
2017-06-04
Jim Procter
JAL-2291 method taking a BitSet for hiding columns
tree
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commitdiff
2017-06-04
Jim Procter
JAL-2291 bug fix - BitSet.set is [start,end+1)
tree
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commitdiff
2017-06-04
Jim Procter
JAL-2291 SequenceI.getInsertionsAsBits for convenient...
tree
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commitdiff
2017-06-02
gmungoc
JAL-2526 additional tests for findPosition with/without...
tree
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commitdiff
2017-06-02
kiramt
JAL-2576 Proposed fix
bug/JAL-2576
tree
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commitdiff
2017-06-02
gmungoc
Merge branch 'features/JAL-2446NCList' into features...
tree
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commitdiff
2017-06-01
gmungoc
JAL-2526 additional calls to sequenceChanged() after...
tree
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commitdiff
2017-06-01
gmungoc
JAL-2526 zapCursor() renamed sequenceChanged()
tree
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commitdiff
2017-06-01
gmungoc
Merge branch 'features/JAL-2446NCList' into features...
tree
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commitdiff
2017-06-01
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-06-01
gmungoc
JAL-2754 Sequence.findFeatures(fromCol, toCol)
features/JAL-2754findFeaturesByColumn
tree
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commitdiff
2017-05-31
Jim Procter
Merge branch 'JAL-2571' into develop
tree
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commitdiff
2017-05-30
kiramt
JAL-2571 Corrected alignment width/height checks to...
tree
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commitdiff
2017-05-30
gmungoc
Merge branch 'features/JAL-2446NCList' into features...
tree
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commitdiff
2017-05-30
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-05-30
gmungoc
JAL-2570 don't zap group colour scheme when mapping...
tree
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commitdiff
2017-05-30
gmungoc
JAL-2526 first draft of findIndex/findPosition with...
tree
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commitdiff
2017-05-29
Jim Procter
Merge branch 'bug/JAL-2034contextchange' into develop
tree
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commitdiff
2017-05-29
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-05-29
gmungoc
JAL-2526 Sequence.findPositions to get residue position...
tree
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commitdiff
2017-05-27
Jim Procter
JAL-2562 javadoc TODO
tree
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commitdiff
2017-05-26
gmungoc
JAL-2480 move ContiguousI and Range to jalview.datamodel
tree
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commitdiff
2017-05-25
gmungoc
JAL-2557 removal of Sequence.sequenceFeatures
tree
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commitdiff
2017-05-25
gmungoc
JAL-2050 make SequenceFeature.score final, adjust const...
tree
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commitdiff
2017-05-25
gmungoc
JAL-2505 simplifying number of SequenceFeature construc...
tree
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commitdiff
2017-05-24
gmungoc
JAL-2505 make SequenceFeature type, begin, end, feature...
tree
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commitdiff
2017-05-24
gmungoc
JAL-2506 relocate Uniprot binding classes, bind to...
tree
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commitdiff
2017-05-24
gmungoc
JAL-2505 remove setters for SequenceFeature.begin,end...
tree
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commitdiff
2017-05-24
gmungoc
Merge branch 'bug/JAL-2541cutWithFeatures' into feature...
tree
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commitdiff
2017-05-24
gmungoc
JAL-2505 JAL-2542 SequenceFeatures.shift() to shift...
tree
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commitdiff
2017-05-24
kiramt
JAL-2034 Added isDefined flag to SequenceGroup
tree
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commitdiff
2017-05-23
gmungoc
JAL-2490 tidy code and tests for feature export in...
tree
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commitdiff
2017-05-23
gmungoc
JAL-2480 methods to get features for group
tree
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commitdiff
2017-05-22
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-05-22
gmungoc
JAL-2480 always include all non-positional features...
tree
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commitdiff
2017-05-22
kiramt
Merge remote-tracking branch 'origin/bug/JAL-2256'...
tree
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commitdiff
2017-05-22
Jim Procter
JAL-2418 patch build - broken htsjdk import
tree
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commitdiff
2017-05-18
Jim Procter
JAL-2388 return empty hidden columns for fully visible...
tree
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commitdiff
2017-05-18
gmungoc
JAL-2541 fix to initSeqFrom (and minor code tidy);...
tree
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commitdiff
2017-05-18
kiramt
JAL-2256 Corrected AllCols/Rows iterator behaviour...
bug/JAL-2256
tree
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commitdiff
2017-05-16
gmungoc
JAL-2505 unreachable code (for many years) removed
tree
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commitdiff
2017-05-16
gmungoc
JAL-2505 set helix number as feature group in SequenceF...
tree
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commitdiff
2017-05-16
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-05-16
kiramt
JAL-2388 Rationalised hashCode method in HiddenColumns
tree
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commitdiff
2017-05-15
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-05-12
gmungoc
JAL-2525 get sequence features for Ontology term(s...
tree
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commitdiff
2017-05-12
gmungoc
JAL-2480 more efficient contains check on add; tidied...
tree
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commitdiff
2017-05-12
Jim Procter
Merge branch 'features/JAL-2388OverviewWindow' into...
tree
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commitdiff
2017-05-11
Jim Procter
JAL-2507 test if an annotation is ‘whitespace’
tree
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commitdiff
2017-05-11
Jim Procter
JAL-2507 Annotation.EMPTY_ANNOTATION - non-null whitesp...
tree
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commitdiff
2017-05-09
gmungoc
JAL-2480 include sequenceFeatureStore in createDatasetS...
tree
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commitdiff
2017-05-09
gmungoc
JAL-2505 use constructors to set (what will be) final...
tree
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commitdiff
2017-05-08
gmungoc
JAL-2505 refactored SequenceFeature construction so...
tree
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commitdiff
2017-05-08
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-05-05
kiramt
Merge remote-tracking branch
tree
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commitdiff
2017-05-05
kiramt
Merge remote-tracking branch 'origin/develop' into
features/JAL-2388hiddencolumnschanges
tree
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commitdiff
2017-05-05
kiramt
Merge remote-tracking branch 'origin/develop' into
tree
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commitdiff
2017-05-04
gmungoc
JAL-2505 delete and readd amended sequence feature
tree
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commitdiff
2017-05-04
gmungoc
JAL-2480 JAL-2505 guard against duplicating links
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2503 AlignmentAnnotation.isQuantitative() test
tree
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commitdiff
2017-05-03
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-05-02
Jim Procter
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-05-02
Jim Procter
Merge branch 'bug/JAL-2424getVisibleContigs' into develop
tree
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commitdiff
2017-04-28
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-04-28
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-04-27
Jim Procter
JAL-2494 fix: updated behaviour for SequenceGroup.findA...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-2494 fixed behaviour for null parameters in line...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-2494 javadoc for AnnotatedCollectionI.findAnnotations
tree
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commitdiff
2017-04-27
gmungoc
JAL-2492 use SequenceFeatures.getNonPositionalFeatures()
tree
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commitdiff
2017-04-27
gmungoc
JAL-2480 don't allow null type in SequenceFeature
tree
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commitdiff
2017-04-26
kiramt
Merge remote-tracking branch 'origin/features/JAL-2388h...
tree
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commitdiff
2017-04-26
kiramt
JAL-2388 last separation of hidden columns/col selection
tree
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commitdiff
2017-04-26
gmungoc
JAL-2490 findFeaturesAtRes with performant feature...
tree
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commitdiff
2017-04-26
kiramt
JAL-2388 Tidies and unit tests
tree
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commitdiff
2017-04-25
kiramt
JAL-2388 Working hidden regions hide/show in desktop
tree
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commitdiff
2017-04-24
kiramt
Merge remote-tracking branch
tree
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commitdiff
2017-04-24
kiramt
JAL-2388 Finished split of hidden columns and selected...
tree
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commitdiff
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