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JAL-3725 helper methods for computing mapped feature range overlap
[jalview.git] / src / jalview / api /
2017-03-30 gmungocMerge branch 'develop' into features/JAL-2435splitScree... tree | commitdiff
2017-03-27 gmungocJAL-2416 add score model description field for tooltip... tree | commitdiff
2017-03-24 gmungocJAL-2428 simplify TreeModel constructors, add getOrigin... tree | commitdiff
2017-03-23 gmungocJAL-2393 code tidy and comments, PIDDistanceModel depre... tree | commitdiff
2017-03-23 gmungocMerge branch 'develop' into features/JAL-2393customMatrices tree | commitdiff
2017-03-22 kiramtMerge remote-tracking branch 'origin/develop' into tree | commitdiff
2017-03-21 Jim ProcterMerge branch 'features/JAL-2388OverviewWindow' into... tree | commitdiff
2017-03-16 kiramtJAL-2388 Applied ViewportRanges to code tree | commitdiff
2017-03-16 kiramtJAL-2388 Renamed viewport position props to viewport... tree | commitdiff
2017-03-15 gmungocJAL-2443 push getResidueBoxColour inside getResidueColour tree | commitdiff
2017-03-15 gmungocJAL-2438 clarify code and javadoc, reinstate updateFeat... tree | commitdiff
2017-03-14 gmungocJAL-2438 unit test, fixes, Javadoc updates tree | commitdiff
2017-03-13 gmungocJAL-2438 corrected handling of default colour tree | commitdiff
2017-03-13 gmungocJAL-2438 FeatureColourFinder refactored from FeatureRen... tree | commitdiff
2017-03-08 gmungocJAL-2435 copy font changes across split screen tree | commitdiff
2017-03-01 gmungocMerge branch 'features/JAL-2295setChimeraAttributes... tree | commitdiff
2017-02-28 gmungocJAL-1632 'includeGaps' applied to FeatureDistanceModel... tree | commitdiff
2017-02-28 kiramtJAL-2388 First move of endRes etc out of AlignmentViewp... tree | commitdiff
2017-02-27 gmungocJAL-838 ScoreMatrix now respects SimilarityParams! tree | commitdiff
2017-02-24 gmungocJAL-838 added 'SeqSpace' PID mode, added parameters... tree | commitdiff
2017-02-24 gmungocJAL-838 first version of PID parameters model tree | commitdiff
2017-02-23 gmungocJAL-2403 JAL-1483 changes to ScoreModelI hierarchy... tree | commitdiff
2017-02-20 gmungocJAL-2403 ScoreModelI now DistanceModelI, ScoreMatrix... tree | commitdiff
2017-02-17 gmungocJAL-2416 removed DNA and PAM250 matrices from ResiduePr... tree | commitdiff
2017-02-13 gmungocJAL-1632 first cut of Tree chooser dialog and ScoreMode... tree | commitdiff
2017-02-09 kiramtMerge remote-tracking branch 'origin/develop' into... tree | commitdiff
2017-02-09 kiramtJAL-2388 Initial refactor of OverviewPanel tree | commitdiff
2017-01-31 gmungocJAL-2371 rename global/viewportColourScheme to residueS... tree | commitdiff
2017-01-31 gmungocJAL-2385 more tests/bug fixes mostly for gui.SliderPane... tree | commitdiff
2017-01-27 gmungocJAL-2371 CollectionColourScheme renamed ResidueShader... tree | commitdiff
2017-01-04 gmungocJAL-2371 CollectionColourScheme wraps ColourSchemeI tree | commitdiff
2016-12-01 Jim ProcterJAL-1933 basic hack to get gap counts shown as an annot... tree | commitdiff
2016-11-25 gmungocMerge branch 'develop' into trialMerge tree | commitdiff
2016-11-22 Jim ProcterMerge branch 'features/JAL-1738_JAL-345_selectionfromhi... tree | commitdiff
2016-11-17 gmungocJAL-98 ProfilesI container for profiles for columns tree | commitdiff
2016-11-16 Jim ProcterMerge branch 'features/JAL-1723_sequenceReport' into... tree | commitdiff
2016-11-02 gmungocJAL-98 ProfileI interface for Profile tree | commitdiff
2016-11-02 gmungocJAL-98 Profile and ResidueCount moved from analysis... tree | commitdiff
2016-10-31 gmungocJAL-1723 ellipsis in tooltip if xrefs to more than... tree | commitdiff
2016-10-30 Jim ProcterJAL-1738 JAL-345 new controller method based on mark... tree | commitdiff
2016-10-28 Jim ProcterJAL-966 SearchResultsI now on viewmodels.AlignmentViewp... tree | commitdiff
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch tree | commitdiff
2016-10-06 gmungocMerge branch 'develop' into bug/JAL-98consensusMemory tree | commitdiff
2016-10-06 Jim ProcterJAL-2089 Merge branch releases/Release_2_10_Branch... tree | commitdiff
2016-10-05 Jim ProcterJAL-2189 apply license tree | commitdiff
2016-10-05 Jim ProcterJAL-2189 source formatting tree | commitdiff
2016-10-03 gmungocJAL-98 use Profile to store consensus, ResidueCount... tree | commitdiff
2016-09-22 gmungocJAL-2216 new dispose() method to null references tree | commitdiff
2016-09-19 gmungocJAL-2172 test and code updates for readonly selection... tree | commitdiff
2016-09-07 Jim ProcterMerge branch 'develop' into bug/JAL-1803_JAL-2157 tree | commitdiff
2016-09-06 gmungocJAL-2106 DBRefEntry.isPrimary() renamed isPrimaryCandid... tree | commitdiff
2016-09-05 gmungocJAL-2106 corrections to DBRefEntry.isPrimary code and... tree | commitdiff
2016-08-31 Jim ProcterJAL-2034 moved ‘isDefinedGroup’ flag to a test method... tree | commitdiff
2016-08-30 gmungocMerge branch 'develop' into features/filetypeEnum tree | commitdiff
2016-08-24 Jim ProcterJAL-2106 DBRefEntry.isPrimary() minimal test & implemen... tree | commitdiff
2016-08-02 Jim ProcterJAL-2068 reinstated false return value for notifyWorking tree | commitdiff
2016-07-20 Jim ProcterJAL-1926 JAL-2106 remove startRes/endRes fields - not... tree | commitdiff
2016-07-18 Jim ProcterMerge branch 'features/JAL-2068groovyAnnotationWorker... tree | commitdiff
2016-07-11 gmungocfile format enum wip changes tree | commitdiff
2016-06-28 tcofoegbuJAL-1479 improved SiftsClient test coverage and impleme... tree | commitdiff
2016-06-21 Jim ProcterMerge branch 'features/JAL-1956_featureStyles' into... tree | commitdiff
2016-06-20 Jim ProcterMerge branch 'develop' into features/JAL-2068groovyAnno... features/JAL-2068groovyAnnotationWorker tree | commitdiff
2016-06-02 tcofoegbuJAL-1944 java doc update and minor house keeping tree | commitdiff
2016-06-01 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-06-01 tcofoegbuJAL-1944 updated bugfix implementation tree | commitdiff
2016-05-31 Jim ProcterJAL-1551 JAL-2106 javadoc tree | commitdiff
2016-05-31 Jim ProcterJAL-2110 abstract methods should never reference their... tree | commitdiff
2016-05-31 tcofoegbumerge tree | commitdiff
2016-05-31 tcofoegbuJAL-1944 fix for visible seqs sometimes been replaced... tree | commitdiff
2016-05-31 gmungocJAL-2110 refactor + tests to allow a dbref version... tree | commitdiff
2016-05-26 Jim ProcterJAL-2121 refactor todo tree | commitdiff
2016-05-10 gmungocMerge branch 'develop' into features/JAL-1956_featureStyles tree | commitdiff
2016-05-04 gmungocJAL-2090 removed test for Java > 1.1 to enable transparency tree | commitdiff
2016-05-03 gmungocJAL-2050 hide introns also when fetching Ensembl xrefs... tree | commitdiff
2016-05-03 gmungocJAL-2068 minimised jalview.gui imports, test for remove... tree | commitdiff
2016-04-26 gmungocJAL-2068 deleting user-defined annotation removes the... tree | commitdiff
2016-04-22 gmungocJAL-2068 Javadoc added tree | commitdiff
2016-03-23 tcofoegbuJAL-2009 added programmatic custom feature setting... tree | commitdiff
2016-03-21 tcofoegbudevelop merge tree | commitdiff
2016-03-15 gmungocJAL-2016 corrected Javadoc, added test for anonymous... tree | commitdiff
2016-03-15 gmungocJAL-2016 FeatureSettingsI now FeatureSettingsModelI tree | commitdiff
2016-03-03 tcofoegbuJAL-1919 fixed bug causing PDBfile test failure tree | commitdiff
2016-02-25 gmungocJAL-2015 parse/write Jalview feature format pushed... tree | commitdiff
2016-02-24 gmungocJAL-2015 JAL-1956 rollout of FeatureColourI in place of JAL-1956_featureStyles tree | commitdiff
2016-02-22 gmungocJAL-1705 first pass at applying preset feature colourin... tree | commitdiff
2016-02-20 gmungocMerge branch 'JAL-1956_featureStyles' into features... tree | commitdiff
2016-02-20 gmungocJAL-2016 first draft of pre-set feature colour scheme tree | commitdiff
2016-02-12 gmungocJAL-2008 avoid unnecessary repaints; signatures changed... tree | commitdiff
2016-01-28 gmungocMerge branch 'develop' into JAL-1705_trialMerge tree | commitdiff
2015-12-22 gmungocJAL-653 set showSequenceFeatures=true on loading a... tree | commitdiff
2015-11-16 tcofoegbuJAL-1967 JAL-1479 refactored sequence<->structure mappi... tree | commitdiff
2015-11-05 tcofoegbuJAL-1479 SiftClient house keeping tree | commitdiff
2015-10-28 tcofoegbuJAL-1479 added support for SIFTs mapping output viewing... tree | commitdiff
2015-10-22 tcofoegbuJAL-1479 added basic support for SIFTs mapping - more... tree | commitdiff
2015-10-16 Jim ProcterJAL-1925 update source version in license Release_2_9_0b2 tree | commitdiff
2015-10-15 tcofoegbuJAL-1479 refactored SequenceI interface - changed getDB... tree | commitdiff
2015-10-14 tcofoegbuJAL-1926 created interface for DBRefEntry tree | commitdiff
2015-10-08 Jim ProcterJAL-1894 update year/version in copyright tree | commitdiff
2015-10-05 Jim ProcterMerge branch 'develop' into Release_2_9_0b1_Branch tree | commitdiff
2015-09-28 tcofoegbuJAL-1896 revised implementation to construct a ColourSc... tree | commitdiff
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