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Merge branch 'bug/JAL-2865removeGC' into develop
[jalview.git] / src / jalview / schemes /
2018-01-30 gmungocJAL-1793 update spike build to latest incl stop and... tree | commitdiff
2018-01-30 gmungocJAL-2898 show 'stop_gained' variants on peptide sequences tree | commitdiff
2018-01-10 gmungocJAL-1793 update spike branch to latest tree | commitdiff
2017-12-11 gmungocJAL-2843 add colour by attribute, and no value colour... tree | commitdiff
2017-11-22 gmungocJAL-2069 spike updated with latest (FeatureTypeSettings) tree | commitdiff
2017-11-22 gmungocJAL-2069 Javadoc added only tree | commitdiff
2017-11-16 gmungocJAL-2069 removed unused and redundant thresholdIsMinMax tree | commitdiff
2017-11-15 gmungocJAL-2816 exclude filtered / thresholded out features... tree | commitdiff
2017-11-15 gmungocJAL-2835 spike updated with latest tree | commitdiff
2017-11-15 gmungocJAL-2835 support filter/colour by nested attribute... tree | commitdiff
2017-11-07 gmungocJAL-2069 update spike with latest tree | commitdiff
2017-11-07 gmungocJAL-2069 corrected overloaded constructor behaviour tree | commitdiff
2017-11-07 gmungocJAL-2069 update spike branch with latest tree | commitdiff
2017-11-07 gmungocJAL-2069 add attributeName and noValueColour to Feature... tree | commitdiff
2017-11-02 gmungocJAL-2808 reverted to develop (attribute filters removed) tree | commitdiff
2017-10-31 gmungocJAL-2808 revised util.matcher package, 2 filter conditi... tree | commitdiff
2017-10-30 gmungocJAL-2808 add attribute filter(s) to FeatureColour tree | commitdiff
2017-10-24 gmungocJAL-2738 update spike branch with latest tree | commitdiff
2017-10-12 Jim ProcterJAL-2773 add new flag to paintAlignment(updateOverview... features/JAL-2773_dontalwaysrecolourstructureonrepaintofoverview tree | commitdiff
2017-10-03 gmungocJAL-2738 copy to spikes/mungo tree | commitdiff
2017-09-03 Jim ProcterMerge branch 'documentation/JAL-2675_release2102b1... tree | commitdiff
2017-08-21 gmungocMerge branch 'develop' into features/JAL-2446NCList features/JAL-2446NCList tree | commitdiff
2017-08-18 Jim ProcterMerge branch 'feature/2588' into merge/develop_feature... tree | commitdiff
2017-08-16 Jim ProcterJAL-2418 add GPL to main sources tree | commitdiff
2017-08-16 Jim ProcterJAL-2418 source formatting tree | commitdiff
2017-08-09 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-07-24 gmungocspike branch updated from latest features/JAL-2446 tree | commitdiff
2017-07-24 gmungocJAL-2624 additional tests for FeatureColour.getColour(), tree | commitdiff
2017-07-23 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-06-28 kiramtJAL-2588 Gap colour scheme now shown in overview tree | commitdiff
2017-06-27 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-06-14 gmungocJAL-2598 Sequence.getSequence return a copy of the... tree | commitdiff
2017-06-09 gmungocJAL-2446 merged to spike branch tree | commitdiff
2017-06-09 gmungocJAL-2592 distinguish "User Defined" (scheme name) from... bug/JAL-2592userDefinedScheme tree | commitdiff
2017-06-06 gmungocJAL-2589 correct colour for Gap in Score and User Defin... tree | commitdiff
2017-04-07 gmungocMerge branch 'develop' into features/JAL-2393customMatrices tree | commitdiff
2017-04-05 gmungocJAL-2361 apply any saved changes to current colour... tree | commitdiff
2017-03-30 gmungocMerge branch 'develop' into bug/JAL-2346annotationChoice tree | commitdiff
2017-03-24 gmungocMerge branch 'develop' into features/JAL-2393customMatrices tree | commitdiff
2017-03-24 Jim ProcterJAL-2360 fix applet build by separating castor XML... 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
2017-02-20 Jim ProcterMerge branch 'features/JAL-2379pcaMemory' into develop tree | commitdiff
2017-02-18 gmungocJAL-2416 better encapsulated 'constants' for BLOSUM62... tree | commitdiff
2017-02-17 gmungocJAL-2416 BLOSUM62 removed from ResidueProperties tree | commitdiff
2017-02-17 gmungocJAL-2416 removed DNA and PAM250 matrices from ResiduePr... tree | commitdiff
2017-02-17 gmungocJAL-2416 scoreMatrices removed from ResidueProperties tree | commitdiff
2017-02-14 gmungocJAL-2346 remove refactored fields, fix test for above... tree | commitdiff
2017-02-14 gmungocMerge branch 'develop' into bug/JAL-2346annotationChoice tree | commitdiff
2017-02-13 gmungocJAL-1632 JAL-2416 load score matrices from file, as... tree | commitdiff
2017-02-13 gmungocJAL-1632 first cut of Tree chooser dialog and ScoreMode... tree | commitdiff
2017-02-09 gmungocJAL-2401 change 'Lower Case Colour' to checkbox with... tree | commitdiff
2017-02-09 gmungocMerge branch 'develop' into features/JAL-2379pcaMemory features/JAL-2379pcaMemory tree | commitdiff
2017-02-09 gmungocJAL-2371 skip upper-casing consensus as it already is tree | commitdiff
2017-02-07 gmungocJAL-2397 PCA gap cost uses last column of score matrix tree | commitdiff
2017-02-07 gmungocJAL-2398 corrected entry for C->R in Blosum62 matrix tree | commitdiff
2017-02-06 gmungocJAL-2379 computePairwiseScores() moved to ScoreMatrix tree | commitdiff
2017-02-03 gmungocJAL-2379 'direct' pairwise score calculation for PCA... tree | commitdiff
2017-02-01 gmungocJAL-2371 (slight!) simplification of isApplicableTo() 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
2017-01-27 gmungocJAL-2360 JAL-2371 updates from review CR-JAL-1 tree | commitdiff
2017-01-26 gmungocJAL-2360 corrected comment tree | commitdiff
2017-01-09 gmungocJAL-2371 remove ColourSchemeI.findColour(c), pure inter... tree | commitdiff
2017-01-06 gmungocJAL-2371 slight simplification of findColour overrides tree | commitdiff
2017-01-06 gmungocMerge branch 'features/JAL-2360colourSchemeApplicabilit... tree | commitdiff
2017-01-06 gmungocJAL-2360 findColour() with no args removed from ColourS... tree | commitdiff
2017-01-04 gmungocJAL-2371 CollectionColourScheme wraps ColourSchemeI tree | commitdiff
2016-12-29 gmungocJAL-2630 first pass groovy colour scheme (with slight... tree | commitdiff
2016-12-23 gmungocJAL-2360 removed UserDefinedColours.userColourSchemes tree | commitdiff
2016-12-22 gmungocJAL-2360 structure viewers now using ColourMenuHelper... tree | commitdiff
2016-12-21 gmungocJAL-2360 ColourMenuHelper now builds and selects items... tree | commitdiff
2016-12-21 gmungocJAL-2360 comment only tree | commitdiff
2016-12-21 gmungocJAL-2360 tidy up, simplify isApplicableTo test tree | commitdiff
2016-12-21 gmungocJAL-2360 no RNAHelices colouring for groups tree | commitdiff
2016-12-21 gmungocJAL-2361 Blosum is enabled for peptide tree | commitdiff
2016-12-21 gmungocJAL-1421 add types to Map tree | commitdiff
2016-12-20 gmungocJAL-2360 ColourSchemes holds configured schemes, AlignF... tree | commitdiff
2016-12-19 gmungocJAL-2360 amended toAppletParameter() for reproducible... tree | commitdiff
2016-12-16 gmungocJAL-2360 added UserColourScheme.toAppletParameter+test... tree | commitdiff
2016-12-16 gmungocJAL-2360 getColour() renamed to getColourScheme(),... tree | commitdiff
2016-12-16 gmungocJAL-2360 refactoring for JalviewColourScheme enum, tree | commitdiff
2016-12-13 gmungocJAL-2365 test for lightgray, darkgray not lightGray... tree | commitdiff
2016-12-13 gmungocJAL-2360 code formatting only and if-else changed to... tree | commitdiff
2016-12-12 gmungocJAL-2362 return correct lower-case colour; Javadoc... tree | commitdiff
2016-12-02 gmungocJAL-2346 Javadoc correction tree | commitdiff
2016-12-02 gmungocJAL-2346 fixed bug (in code not reached by Jalview) tree | commitdiff
2016-12-01 gmungocJAL-2346 restore choice of annotation for colouring... tree | commitdiff
2016-11-17 gmungocJAL-98 ProfilesI container for profiles for columns tree | commitdiff
2016-11-08 gmungocJAL-2301 made T hydrophobic as per the cited conservati... 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
2016-11-01 gmungocJAL-98 use Integer constants; tests added for propHash... tree | commitdiff
2016-10-27 gmungocJAL-98 refactor bleachColour() to ColorUtils tree | commitdiff
2016-10-26 gmungocJAL-2286 modal residue check + commenting tree | commitdiff
2016-10-26 gmungocJAL-2286 javadoc, refactor, unit tests for threshold... tree | commitdiff
2016-10-25 gmungocJAL-2286 use constant for fixed colours tree | commitdiff
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch tree | commitdiff
2016-10-25 gmungocJAL-98 field comments updated tree | commitdiff
2016-10-06 gmungocMerge branch 'develop' into bug/JAL-98consensusMemory tree | commitdiff
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