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JAL-281 changed load associated tree GUI item to menu selection
[jalview.git]
/
src
/
jalview
/
datamodel
/
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
2017-04-24
gmungoc
JAL-2424 final contig now an inclusive range
bug/JAL-2424getVisibleContigs
tree
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commitdiff
2017-04-24
kiramt
JAL-2388 Hidden cols separated from column selection...
tree
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commitdiff
2017-04-21
kiramt
JAL-2388 Alignment col and row collections with iterators
tree
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commitdiff
2017-04-20
gmungoc
JAL-2483 JAL-2481 findAllFeatures without scanning...
tree
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commitdiff
2017-04-19
gmungoc
JAL-2480 cache min-max score values per sequence and...
tree
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commitdiff
2017-04-19
kiramt
Merge remote-tracking branch 'origin/develop' into
tree
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commitdiff
2017-04-19
gmungoc
JAL-2483 use SequenceFeatures to look up groups, types...
tree
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commitdiff
2017-04-18
gmungoc
JAL-2480 subtract from total length on deleting feature
tree
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commitdiff
2017-04-18
gmungoc
JAL-2480 test coverage / bug fixes / javadoc
tree
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commitdiff
2017-04-18
gmungoc
JAL-2480 SequenceFeaturesI encapsulates features api
tree
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commitdiff
2017-04-17
gmungoc
JAL-2446 comment updates
tree
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commitdiff
2017-04-17
gmungoc
JAL-2446 promote Range from test to src to replace...
tree
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commitdiff
2017-04-17
gmungoc
JAL-2446 tidied up / generalised binary search in Featu...
tree
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commitdiff
2017-04-17
gmungoc
JAL-2446 add call to SequenceFeatures.delete(); use...
tree
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commitdiff
2017-04-12
gmungoc
JAL-2446 getGroups, getFeatures for positional/non...
tree
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commitdiff
2017-04-11
gmungoc
JAL-2446 find feature types for one or more groups...
tree
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commitdiff
2017-04-11
gmungoc
JAL-2446 getFeatureTypesForGroup() added
tree
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commitdiff
2017-04-11
gmungoc
JAL-2446 added getFeatureGroups
tree
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commitdiff
2017-04-10
gmungoc
JAL-2446 SequenceFeatures.hasFeatures() added
tree
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commitdiff
2017-04-10
gmungoc
JAL-2446 FeatureStore.isEmpty() added
tree
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commitdiff
2017-04-07
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-04-07
gmungoc
JAL-2446 fix size maintenance during add
tree
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commitdiff
2017-04-07
gmungoc
JAL-2446 added delete/contains to pseudo-random tests...
tree
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commitdiff
2017-04-06
gmungoc
JAL-2446 added contains, delete, checks for inclusion...
tree
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commitdiff
2017-04-06
gmungoc
JAL-2446 pseudo-random test of findOverlaps, bug fix...
tree
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commitdiff
2017-04-05
gmungoc
JAL-2446 various get and find methods added with test...
tree
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commitdiff
2017-04-05
gmungoc
JAL-2446 method isNonPositional() added
tree
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commitdiff
2017-04-03
gmungoc
JAL-2446 pseudo-random generator unit test, and fixes...
tree
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commitdiff
2017-03-31
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
tree
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commitdiff
2017-03-31
gmungoc
JAL-2405 additional checks for circular reference in...
tree
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commitdiff
2017-03-30
gmungoc
Merge branch 'develop' into bug/JAL-2346annotationChoice
tree
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commitdiff
2017-03-29
kiramt
JAL-2388 New rendering code, extensions to support...
tree
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commitdiff
2017-03-29
kiramt
JAL-2388 New iterators and tests
tree
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commitdiff
2017-03-23
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-03-21
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
features/JAL-653_JAL-1766_htslib_refseqsupport
tree
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commitdiff
2017-03-21
Jim Procter
Merge branch 'features/JAL-2388OverviewWindow' into...
tree
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commitdiff
2017-03-20
gmungoc
JAL-2446 FeatureStore with NCList - work in progress
tree
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commitdiff
2017-03-17
kiramt
JAL-2437 Synchronization corrections and unit tests
tree
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commitdiff
2017-03-17
kiramt
JAL-2388 Renamed column and row subtraction functions
tree
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commitdiff
2017-03-15
kiramt
JAL-2388 Unit tests and tidies
tree
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commitdiff
2017-03-14
kiramt
JAL-2388 New hidden cols/seqs functions to support...
tree
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commitdiff
2017-03-10
kiramt
JAL-2437 Fixed reordering of sequences when hiding...
tree
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commitdiff
2017-03-07
kiramt
JAL-2388 Missed commit
tree
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commitdiff
2017-03-07
kiramt
Merge remote-tracking branch 'origin/develop' into...
tree
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commitdiff
2017-03-07
kiramt
JAL-2429 findColumnPosition returns 0 for cols in regio...
tree
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commitdiff
2017-03-07
kiramt
JAL-2429 Additional fix to ColumnSelection when hidden...
tree
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commitdiff
2017-03-03
kiramt
JAL-2429 Fix to ColumnSelection::findColumnPosition
tree
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commitdiff
2017-03-03
kiramt
JAL-2388 Initial removal of hidden cols/seqs out of...
tree
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commitdiff
2017-03-01
gmungoc
Merge branch 'features/JAL-2295setChimeraAttributes...
tree
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commitdiff
2017-02-23
gmungoc
JAL-2403 JAL-1483 changes to ScoreModelI hierarchy...
tree
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commitdiff
2017-02-21
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
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