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jalview.git
2017-03-28 tcofoegbuJAL-2465 unit test for bugfix commit | commitdiff | tree | snapshot
2017-03-28 tcofoegbuJAL-2465 bugfix and rerefactor renamed getPdbFile(... commit | commitdiff | tree | snapshot
2017-03-23 tcofoegbuJAL-2463 bugfix commit | commitdiff | tree | snapshot
2017-03-20 tcofoegbuMerge JAL-2136_phyre2_integration to develop commit | commitdiff | tree | snapshot
2017-03-17 tcofoegbuJAL-2136 JAL-2137 Improvements: enable STRUCTMODEL... merge/JAL-2136_phyre2_integration commit | commitdiff | tree | snapshot
2017-03-16 Jim ProcterMerge branch 'merges/develop_JAL2295setChimeraAttribute... commit | commitdiff | tree | snapshot
2017-03-16 Jim ProcterJAL-1933 refactor parameter for code clarity commit | commitdiff | tree | snapshot
2017-03-14 tcofoegbuJAL-2136 JAL-2137 Improved STRUCTMODEL annotation synta... commit | commitdiff | tree | snapshot
2017-03-10 tcofoegbuJAL-2136 JAL-2137 Modified STRUCTMODEL annotation forma... commit | commitdiff | tree | snapshot
2017-03-09 kiramtJAL-2426 Checks on conservation thread in case we are... commit | commitdiff | tree | snapshot
2017-03-09 kiramtJAL-2426 Removal of NPE in conservation thread when... commit | commitdiff | tree | snapshot
2017-03-08 gmungocJAL-2430 colour columns hidden in alignment gray on... commit | commitdiff | tree | snapshot
2017-03-08 gmungocJAL-2295 avoid quotes breaking attribute value parsing commit | commitdiff | tree | snapshot
2017-03-07 gmungocJAL-2295 status messages for Chimera attributes set... commit | commitdiff | tree | snapshot
2017-03-02 gmungocJAL-2295 tweak order and wording of Superpose menu... commit | commitdiff | tree | snapshot
2017-03-02 gmungocJAL-2295 make 'Jmol' menu appear; enable/disable Superp... commit | commitdiff | tree | snapshot
2017-03-01 gmungocJAL-1264 smarter way to skip autocalc'd annotations... commit | commitdiff | tree | snapshot
2017-03-01 gmungocMerge branch 'features/JAL-2295setChimeraAttributes... commit | commitdiff | tree | snapshot
2017-02-28 tcofoegbuJAL-2136 added improvement to parse crudelist file... commit | commitdiff | tree | snapshot
2017-02-20 tcofoegbuJAL-2136 merged and resolved conflicts with 80edaa84d6d... commit | commitdiff | tree | snapshot
2017-02-20 Jim ProcterMerge branch 'features/JAL-2379pcaMemory' into develop commit | commitdiff | tree | snapshot
2017-02-20 tcofoegbuMerge branch 'reviews/features/JAL-2136_phyre2_integrat... commit | commitdiff | tree | snapshot
2017-02-16 Jim ProcterMerge branch 'bug/JAL-2374_JAL-2419_overlappinggroups_c... commit | commitdiff | tree | snapshot
2017-02-15 Jim ProcterJAL-2374 JAL-2419 - TODO suspiciously redundant nested... bug/JAL-2374_JAL-2419_overlappinggroups_currentselection_popupmenu commit | commitdiff | tree | snapshot
2017-02-15 Jim Procterfix for JAL-2419 - don’t trash the current selection commit | commitdiff | tree | snapshot
2017-02-15 Jim ProcterJAL-2374 don’t search twice for containing group to... commit | commitdiff | tree | snapshot
2017-02-15 Jim ProcterJAL-2374 tests for SequenceGroup.contains commit | commitdiff | tree | snapshot
2017-02-15 Jim ProcterJAL-2374 JAL-1270 assign SequenceGroup tests to ‘Functi... commit | commitdiff | tree | snapshot
2017-02-15 Jim ProcterJAL-2374 new contains methods for seq and seq,apos commit | commitdiff | tree | snapshot
2017-02-15 Jim ProcterJAL-2374 javadoc - qualify that sequence argument to... commit | commitdiff | tree | snapshot
2017-02-10 gmungocJAL-2371 small move of code, typo correction commit | commitdiff | tree | snapshot
2017-02-09 Jim ProcterMerge branch 'features/JAL-2316' into develop commit | commitdiff | tree | snapshot
2017-02-09 Jim ProcterMerge branch 'develop' into features/JAL-2316 features/JAL-2316 commit | commitdiff | tree | snapshot
2017-02-09 gmungocJAL-2401 tweaked button text, added Spanish commit | commitdiff | tree | snapshot
2017-02-09 gmungocJAL-2401 change 'Lower Case Colour' to checkbox with... commit | commitdiff | tree | snapshot
2017-02-09 gmungocJAL-2371 no test for lower case consensus as not expect... commit | commitdiff | tree | snapshot
2017-02-09 gmungocJAL-2371 ensure some colour scheme (may be None) is... commit | commitdiff | tree | snapshot
2017-02-09 gmungocMerge branch 'develop' into features/JAL-2379pcaMemory features/JAL-2379pcaMemory commit | commitdiff | tree | snapshot
2017-02-09 gmungocJAL-2371 skip upper-casing consensus as it already is commit | commitdiff | tree | snapshot
2017-02-09 gmungocJAL-2405 check for circular reference in SequenceGroup... commit | commitdiff | tree | snapshot
2017-02-09 gmungocJAL-2405 set initial selection group alignment context commit | commitdiff | tree | snapshot
2017-02-09 gmungocJAL-2405 enable nucleotide/peptide colour schemes in... commit | commitdiff | tree | snapshot
2017-02-08 Jim ProcterJAL-2316 tidying preferences help page commit | commitdiff | tree | snapshot
2017-02-08 Jim ProcterJAL-2316 tidied up documentation for Links tab commit | commitdiff | tree | snapshot
2017-02-08 gmungocJAL-2405 set context on selection group for tailored... commit | commitdiff | tree | snapshot
2017-02-08 Jim ProcterJAL-2136 update merged code for JAL-2040 for new FileFo... reviews/features/JAL-2136_phyre2_integration_withJims commit | commitdiff | tree | snapshot
2017-02-08 gmungocJAL-2401 fix for NPE on selectedButtons, tweak for... commit | commitdiff | tree | snapshot
2017-02-08 kiramtMerge remote-tracking branch 'origin/develop' into... commit | commitdiff | tree | snapshot
2017-02-08 Jim ProcterJAL-2366 updated default URL to jalview.org/services... commit | commitdiff | tree | snapshot
2017-02-07 Jim ProcterMerge branch 'features/JAL-2371collectionColourScheme... commit | commitdiff | tree | snapshot
2017-02-07 gmungocJAL-2401 Lower Case Colour toggleable, help text added commit | commitdiff | tree | snapshot
2017-02-07 gmungocJAL-2379 removed unused commented code commit | commitdiff | tree | snapshot
2017-02-07 gmungocJAL-2397 flag provided for 2.10.1 PCA gap calculation... commit | commitdiff | tree | snapshot
2017-02-07 gmungocJAL-2398 include 'compatibility mode' for C->R score... commit | commitdiff | tree | snapshot
2017-02-07 gmungocJAL-2397 scripts to toggle 2.10.1 / 2.10.2 PCA calculat... commit | commitdiff | tree | snapshot
2017-02-07 gmungocJAL-2397 PCA gap cost uses last column of score matrix commit | commitdiff | tree | snapshot
2017-02-07 gmungocJAL-2398 corrected entry for C->R in Blosum62 matrix commit | commitdiff | tree | snapshot
2017-02-06 gmungocJAL-2379 computePairwiseScores() moved to ScoreMatrix commit | commitdiff | tree | snapshot
2017-02-03 gmungocJAL-2379 'direct' pairwise score calculation for PCA... commit | commitdiff | tree | snapshot
2017-02-01 gmungocJAL-2371 (slight!) simplification of isApplicableTo() commit | commitdiff | tree | snapshot
2017-02-01 gmungocJAL-2383 and Spanish! commit | commitdiff | tree | snapshot
2017-01-31 gmungocJAL-2371 commented code removed only commit | commitdiff | tree | snapshot
2017-01-31 gmungocJAL-2371 rename global/viewportColourScheme to residueS... commit | commitdiff | tree | snapshot
2017-01-31 gmungocJAL-2385 more tests/bug fixes mostly for gui.SliderPane... commit | commitdiff | tree | snapshot
2017-01-30 tcofoegbuMerge branch 'reviews/features/JAL-2136_phyre2_integrat... commit | commitdiff | tree | snapshot
2017-01-27 gmungocJAL-2379 commented out code removed commit | commitdiff | tree | snapshot
2017-01-27 gmungocJAL-2371 CollectionColourScheme renamed ResidueShader... commit | commitdiff | tree | snapshot
2017-01-27 gmungocJAL-2099 belated unit test commit | commitdiff | tree | snapshot
2017-01-27 gmungocJAL-2360 JAL-2371 updates from review CR-JAL-1 commit | commitdiff | tree | snapshot
2017-01-27 kiramtJAL-2366 Removed unneeded setEnabled calls commit | commitdiff | tree | snapshot
2017-01-26 gmungocJAL-2360 corrected comment commit | commitdiff | tree | snapshot
2017-01-26 gmungocJAL-2360 C is Pink with consensus > 85% (not 100%) commit | commitdiff | tree | snapshot
2017-01-26 kiramtMerge remote-tracking branch 'origin/develop' into... commit | commitdiff | tree | snapshot
2017-01-26 gmungocMerge branch 'features/JAL-2360colourSchemeApplicabilit... commit | commitdiff | tree | snapshot
2017-01-26 gmungocMerge branch 'develop' into features/JAL-2360colourSche... commit | commitdiff | tree | snapshot
2017-01-26 kiramtJAL-2316 Updated to use identifiers jalview service commit | commitdiff | tree | snapshot
2017-01-26 gmungocMerge branch 'develop' into features/JAL-2379pcaMemory commit | commitdiff | tree | snapshot
2017-01-26 gmungocJAL-2344 test fix and code tidy for review comments commit | commitdiff | tree | snapshot
2017-01-26 gmungocJAL-2380 code tidy after review commit | commitdiff | tree | snapshot
2017-01-25 gmungocJAL-2344 push Cache.getProperty("LAST_DIRECTORY") insid... commit | commitdiff | tree | snapshot
2017-01-23 gmungocJAL-2379 made SparseMatrix.divide() so as to exactly... commit | commitdiff | tree | snapshot
2017-01-23 Jim ProcterMerge branch 'features/JAL-2040_JAL-2137_phyre2' into... commit | commitdiff | tree | snapshot
2017-01-23 gmungocJAL-2386 unit tests for change colour (and minor refact... commit | commitdiff | tree | snapshot
2017-01-23 gmungocJAL-2386 simplify changeColour (doesn't change colour... commit | commitdiff | tree | snapshot
2017-01-20 tcofoegbuJAL-2375 JAL-2376 First commit of implementation for... commit | commitdiff | tree | snapshot
2017-01-20 gmungocMerge branch 'features/JAL-2360colourSchemeApplicabilit... commit | commitdiff | tree | snapshot
2017-01-20 gmungocMerge branch 'develop' into features/JAL-2360colourSche... commit | commitdiff | tree | snapshot
2017-01-20 gmungocJAL-2385 tweak to applet 'switch colour slider context' commit | commitdiff | tree | snapshot
2017-01-20 gmungocMerge branch 'features/JAL-2360colourSchemeApplicabilit... commit | commitdiff | tree | snapshot
2017-01-20 gmungocMerge branch 'develop' into features/JAL-2360colourSche... commit | commitdiff | tree | snapshot
2017-01-20 gmungocJAL-2385 update slider settings when switching slider... commit | commitdiff | tree | snapshot
2017-01-20 gmungocMerge branch 'features/JAL-2360colourSchemeApplicabilit... commit | commitdiff | tree | snapshot
2017-01-20 gmungocJAL-2383 fixup from last merge commit | commitdiff | tree | snapshot
2017-01-20 gmungocMerge branch 'develop' into features/JAL-2360colourSche... commit | commitdiff | tree | snapshot
2017-01-20 gmungocJAL-2383 check for null, spelling commit | commitdiff | tree | snapshot
2017-01-20 gmungocJAL-2383 make popup colour menu order and wording consi... commit | commitdiff | tree | snapshot
2017-01-20 gmungocJAL-2383 restore group conservation slider setting... commit | commitdiff | tree | snapshot
2017-01-20 gmungocMerge branch 'develop' into features/JAL-2360colourSche... commit | commitdiff | tree | snapshot
2017-01-19 Jim ProcterMerge branch 'spike/JAL-2040_JAL-2137_phyre2' into... features/JAL-2040_JAL-2137_phyre2 commit | commitdiff | tree | snapshot
2017-01-19 gmungocJAL-2383 restore PID colour threshold from project... commit | commitdiff | tree | snapshot
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