2017-02-27 |
gmungoc | JAL-2416 seqspace.scm and PIDDistanceModel replaced... |
tree | commitdiff |
2017-02-27 |
gmungoc | JAL-838 ScoreMatrix now respects SimilarityParams! |
tree | commitdiff |
2017-02-27 |
gmungoc | JAL-838 tests for PID calculation with parameter options |
tree | commitdiff |
2017-02-24 |
gmungoc | JAL-838 added 'SeqSpace' PID mode, added parameters... |
tree | commitdiff |
2017-02-24 |
gmungoc | JAL-2403 PIDModel added (wip) |
tree | commitdiff |
2017-02-24 |
gmungoc | JAL-1483 PIDModel potential replacement for PIDDistance... |
tree | commitdiff |
2017-02-24 |
gmungoc | JAL-2403 JAL-1483 push 'reverseRange' inside Matrix |
tree | commitdiff |
2017-02-23 |
gmungoc | JAL-2403 JAL-1483 changes to ScoreModelI hierarchy... |
tree | commitdiff |
2017-02-23 |
gmungoc | JAL-2403 additional methods to support distance/similar... |
tree | commitdiff |
2017-02-21 |
gmungoc | JAL-2416 typo |
tree | commitdiff |
2017-02-21 |
gmungoc | JAL-2416 ScoreMatrix.getMatrix() returns a defensive... |
tree | commitdiff |
2017-02-21 |
gmungoc | JAL-2416 support roundtrip print/parse of ScoreMatrix |
tree | commitdiff |
2017-02-21 |
gmungoc | Merge branch 'develop' into features/JAL-2393customMatrices |
tree | commitdiff |
2017-02-21 |
gmungoc | JAL-2416 more validation in ScoreMatrix constructor |
tree | commitdiff |
2017-02-20 |
gmungoc | JAL-2403 ScoreModelI now DistanceModelI, ScoreMatrix... |
tree | commitdiff |
2017-02-20 |
gmungoc | JAL-2416 replaced dependency on ResidueProperties with... |
tree | commitdiff |
2017-02-20 |
Jim Procter | Merge branch 'features/JAL-2379pcaMemory' into develop |
tree | commitdiff |
2017-02-17 |
gmungoc | JAL-2416 scoreMatrices removed from ResidueProperties |
tree | commitdiff |
2017-02-17 |
gmungoc | JAL-2413 extracted new method SetUtils.countDisjunction() |
tree | commitdiff |
2017-02-17 |
gmungoc | JAL-2416 score models now held in order added |
tree | commitdiff |
2017-02-17 |
gmungoc | JAL-2416 allow space in score matrix name |
tree | commitdiff |
2017-02-17 |
gmungoc | JAL-2403 extract method refactoring of FeatureScoreMode... |
tree | commitdiff |
2017-02-15 |
Jim Procter | JAL-2374 tests for SequenceGroup.contains |
tree | commitdiff |
2017-02-15 |
Jim Procter | JAL-2374 JAL-1270 assign SequenceGroup tests to ‘Functi... |
tree | commitdiff |
2017-02-14 |
gmungoc | Parsing moved to (new) ScoreMatrixFile, drag and drop... |
tree | commitdiff |
2017-02-13 |
gmungoc | JAL-2416 allow alphabet symbol (optional) in first... |
tree | commitdiff |
2017-02-13 |
gmungoc | JAL-1632 JAL-2416 load score matrices from file, as... |
tree | commitdiff |
2017-02-13 |
gmungoc | JAL-1632 first cut of Tree chooser dialog and ScoreMode... |
tree | commitdiff |
2017-02-09 |
Jim Procter | Merge branch 'develop' into features/JAL-2316 features/JAL-2316 |
tree | commitdiff |
2017-02-09 |
gmungoc | JAL-2371 no test for lower case consensus as not expect... |
tree | commitdiff |
2017-02-09 |
gmungoc | Merge branch 'develop' into features/JAL-2379pcaMemory features/JAL-2379pcaMemory |
tree | commitdiff |
2017-02-09 |
gmungoc | JAL-2405 check for circular reference in SequenceGroup... |
tree | commitdiff |
2017-02-09 |
gmungoc | JAL-2405 set initial selection group alignment context |
tree | commitdiff |
2017-02-08 |
kiramt | Merge remote-tracking branch 'origin/develop' into... |
tree | commitdiff |
2017-02-07 |
gmungoc | JAL-2397 PCA gap cost uses last column of score matrix |
tree | commitdiff |
2017-02-06 |
gmungoc | JAL-2379 computePairwiseScores() moved to ScoreMatrix |
tree | commitdiff |
2017-02-03 |
gmungoc | JAL-2379 'direct' pairwise score calculation for PCA... |
tree | commitdiff |
2017-01-31 |
gmungoc | JAL-2371 rename global/viewportColourScheme to residueS... |
tree | commitdiff |
2017-01-31 |
gmungoc | JAL-2385 more tests/bug fixes mostly for gui.SliderPane... |
tree | commitdiff |
2017-01-27 |
gmungoc | JAL-2371 CollectionColourScheme renamed ResidueShader... |
tree | commitdiff |
2017-01-27 |
gmungoc | JAL-2099 belated unit test |
tree | commitdiff |
2017-01-27 |
gmungoc | JAL-2360 JAL-2371 updates from review CR-JAL-1 |
tree | commitdiff |
2017-01-26 |
kiramt | Merge remote-tracking branch 'origin/develop' into... |
tree | commitdiff |
2017-01-26 |
gmungoc | Merge branch 'features/JAL-2360colourSchemeApplicabilit... |
tree | commitdiff |
2017-01-26 |
gmungoc | Merge branch 'develop' into features/JAL-2360colourSche... |
tree | commitdiff |
2017-01-26 |
kiramt | JAL-2316 Updated to use identifiers jalview service |
tree | commitdiff |
2017-01-26 |
gmungoc | Merge branch 'develop' into features/JAL-2379pcaMemory |
tree | commitdiff |
2017-01-26 |
gmungoc | JAL-2344 test fix and code tidy for review comments |
tree | commitdiff |
2017-01-26 |
gmungoc | JAL-2380 code tidy after review |
tree | commitdiff |
2017-01-23 |
gmungoc | JAL-2379 made SparseMatrix.divide() so as to exactly... |
tree | commitdiff |
2017-01-23 |
gmungoc | JAL-2386 unit tests for change colour (and minor refact... |
tree | commitdiff |
2017-01-20 |
gmungoc | Merge branch 'features/JAL-2360colourSchemeApplicabilit... |
tree | commitdiff |
2017-01-20 |
gmungoc | Merge branch 'develop' into features/JAL-2360colourSche... |
tree | commitdiff |
2017-01-19 |
gmungoc | JAL-2370 unit tests for extracted ColumnSelection.stret... |
tree | commitdiff |
2017-01-18 |
gmungoc | JAL-2379 more realistic matrices for unit tests |
tree | commitdiff |
2017-01-17 |
gmungoc | JAL-2370 fix bug when hiding a range including two... |
tree | commitdiff |
2017-01-17 |
gmungoc | Merge branch 'features/JAL-2360colourSchemeApplicabilit... |
tree | commitdiff |
2017-01-17 |
gmungoc | Merge branch 'develop' into features/JAL-2360colourSche... |
tree | commitdiff |
2017-01-17 |
gmungoc | JAL-2379 SparseMatrix alternative to Matrix, both MatrixI |
tree | commitdiff |
2017-01-17 |
gmungoc | JAL-2379 SparseDoubleArray added (for use by SparseMatrix) |
tree | commitdiff |
2017-01-16 |
gmungoc | JAL-1270 class renamed |
tree | commitdiff |
2017-01-16 |
gmungoc | JAL-2380 fix Matrix.postMultiply() |
tree | commitdiff |
2017-01-16 |
gmungoc | JAL-1270 tweaks to AlignmentGenerator / client class |
tree | commitdiff |
2017-01-12 |
gmungoc | JAL-1270 renamed AlignmentGenerator, and added peptide... |
tree | commitdiff |
2017-01-12 |
gmungoc | JAL-2344 now flagging formats as 'identifiable' instead... |
tree | commitdiff |
2017-01-11 |
gmungoc | JAL-2344 FileFormats singleton for formats, FileFormatI... |
tree | commitdiff |
2017-01-10 |
gmungoc | JAL-2377 avoid infinite loop formatting 1.0E-310 |
tree | commitdiff |
2017-01-10 |
kiramt | JAL-2316 Separate label/db name in UrlProviders. Unit... |
tree | commitdiff |
2017-01-09 |
gmungoc | JAL-2371 remove ColourSchemeI.findColour(c), pure inter... |
tree | commitdiff |
2017-01-09 |
kiramt | Merge remote-tracking branch 'origin/develop' into... |
tree | commitdiff |
2017-01-06 |
gmungoc | Merge branch 'features/JAL-2360colourSchemeApplicabilit... |
tree | commitdiff |
2017-01-06 |
gmungoc | JAL-2360 findColour() with no args removed from ColourS... |
tree | commitdiff |
2017-01-06 |
gmungoc | Merge branch 'features/JAL-2360colourSchemeApplicabilit... |
tree | commitdiff |
2017-01-06 |
gmungoc | Merge branch 'develop' into features/JAL-2360colourSche... |
tree | commitdiff |
2017-01-05 |
gmungoc | JAL-2374 unit test for (modified) Alignment.findGroup() |
tree | commitdiff |
2017-01-05 |
gmungoc | JAL-2371 add test for toggling ignore gaps with PID... |
tree | commitdiff |
2017-01-05 |
gmungoc | Merge branch 'features/JAL-2360colourSchemeApplicabilit... |
tree | commitdiff |
2017-01-05 |
gmungoc | Merge branch 'develop' into features/JAL-2360colourSche... |
tree | commitdiff |
2017-01-05 |
gmungoc | JAL-2371 tests added |
tree | commitdiff |
2017-01-04 |
gmungoc | JAL-2371 CollectionColourScheme wraps ColourSchemeI |
tree | commitdiff |
2016-12-29 |
gmungoc | JAL-2630 first pass groovy colour scheme (with slight... |
tree | commitdiff |
2016-12-23 |
gmungoc | JAL-2360 removed UserDefinedColours.userColourSchemes |
tree | commitdiff |
2016-12-22 |
gmungoc | JAL-2360 structure viewers now using ColourMenuHelper... |
tree | commitdiff |
2016-12-21 |
gmungoc | JAL-2360 simplified code to create a new colour scheme |
tree | commitdiff |
2016-12-21 |
gmungoc | JAL-2360 ColourMenuHelper now builds and selects items... |
tree | commitdiff |
2016-12-21 |
gmungoc | JAL-2360 Javadoc and test cases for findAnnotation |
tree | commitdiff |
2016-12-20 |
gmungoc | JAL-2360 testRegisterColourScheme to demonstrate a... |
tree | commitdiff |
2016-12-20 |
gmungoc | JAL-2360 ColourSchemes holds configured schemes, AlignF... |
tree | commitdiff |
2016-12-19 |
gmungoc | JAL-2360 amended toAppletParameter() for reproducible... |
tree | commitdiff |
2016-12-16 |
kiramt | JAL-2316 Added database name column to URL links table... |
tree | commitdiff |
2016-12-16 |
gmungoc | JAL-2356 enhanced unit test to verify reuse (or not... |
tree | commitdiff |
2016-12-16 |
gmungoc | JAL-2360 added UserColourScheme.toAppletParameter+test... |
tree | commitdiff |
2016-12-16 |
gmungoc | JAL-2360 getColour() renamed to getColourScheme(),... |
tree | commitdiff |
2016-12-16 |
gmungoc | JAL-2360 refactoring for JalviewColourScheme enum, |
tree | commitdiff |
2016-12-16 |
gmungoc | JAL-1354 use i18n text for expected value |
tree | commitdiff |
2016-12-15 |
kiramt | JAL-2316 Changes following review. |
tree | commitdiff |
2016-12-14 |
gmungoc | JAL-2360 test added |
tree | commitdiff |
2016-12-13 |
kiramt | Merge branch 'develop' into features/JAL-2316 |
tree | commitdiff |
2016-12-12 |
gmungoc | JAL-2361 extract methods to (re-)build colour menu |
tree | commitdiff |
2016-12-12 |
kiramt | JAL-2316 Unit test update to UrlLinkTableModel and... |
tree | commitdiff |
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