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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
2017-01-27 gmungocJAL-2379 commented out code removed 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
2017-01-20 gmungocJAL-2385 tweak to applet 'switch colour slider context' commit | commitdiff | tree | snapshot
2017-01-20 gmungocJAL-2385 update slider settings when switching slider... 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
2017-01-19 gmungocJAL-2383 restore PID colour threshold from project... commit | commitdiff | tree | snapshot
2017-01-19 gmungocJAL-2370 unit tests for extracted ColumnSelection.stret... commit | commitdiff | tree | snapshot
2017-01-19 gmungocJAL-2370 corrected applet mouse drag, refactored into... commit | commitdiff | tree | snapshot
2017-01-18 gmungocJAL-2379 more realistic matrices for unit tests commit | commitdiff | tree | snapshot
2017-01-17 gmungocJAL-2370 fix bug when hiding a range including two... commit | commitdiff | tree | snapshot
2017-01-17 gmungocJAL-2379 use SparseMatrix for encoded sequences, tidy... commit | commitdiff | tree | snapshot
2017-01-17 gmungocJAL-2379 SparseMatrix alternative to Matrix, both MatrixI commit | commitdiff | tree | snapshot
2017-01-17 gmungocJAL-2379 SparseDoubleArray added (for use by SparseMatrix) commit | commitdiff | tree | snapshot
2017-01-16 gmungocJAL-1270 class renamed commit | commitdiff | tree | snapshot
2017-01-16 gmungocJAL-2380 fix Matrix.postMultiply() commit | commitdiff | tree | snapshot
2017-01-16 gmungocJAL-1270 tweaks to AlignmentGenerator / client class commit | commitdiff | tree | snapshot
2017-01-12 gmungocJAL-1270 renamed AlignmentGenerator, and added peptide... commit | commitdiff | tree | snapshot
2017-01-12 gmungocJAL-2379 null references to PCA model when panel is... commit | commitdiff | tree | snapshot
2017-01-12 gmungocJAL-2344 now flagging formats as 'identifiable' instead... commit | commitdiff | tree | snapshot
2017-01-11 gmungocJAL-2344 separated AlignmentFileI into AlignmentFileRea... commit | commitdiff | tree | snapshot
2017-01-11 gmungocJAL-2344 groovy script that registers a new file format commit | commitdiff | tree | snapshot
2017-01-11 gmungocJAL-2344 FileFormats singleton for formats, FileFormatI... commit | commitdiff | tree | snapshot
2017-01-11 gmungocJAL-2344 addSequence() method added to support Groovy... commit | commitdiff | tree | snapshot
2017-01-10 gmungocJAL-2377 avoid infinite loop formatting 1.0E-310 commit | commitdiff | tree | snapshot
2017-01-05 gmungocJAL-2374 unit test for (modified) Alignment.findGroup() commit | commitdiff | tree | snapshot
2017-01-05 gmungocJAL-2374 fix popup out by one and multiple groups bugs commit | commitdiff | tree | snapshot
2017-01-05 gmungocJAL-2373 set state of Above PID, By Conservation in... commit | commitdiff | tree | snapshot
2016-12-16 gmungocJAL-2356 enhanced unit test to verify reuse (or not... commit | commitdiff | tree | snapshot
2016-12-14 Jim ProcterMerge branch 'patch/JAL-2197_jpredforjnets' into develop commit | commitdiff | tree | snapshot
2016-12-09 gmungocJAL-2105 updated for reviewed REST version 4.8 commit | commitdiff | tree | snapshot
2016-12-09 gmungocJAL-1895 suppress RNA interaction colour option commit | commitdiff | tree | snapshot
2016-12-08 gmungocJAL-2359 add Window menu entry only after all danger... commit | commitdiff | tree | snapshot
2016-12-07 gmungocJAL-2356 use cached Sifts file if not expired commit | commitdiff | tree | snapshot
2016-12-07 gmungocJAL-2354 handle error response when fetching features commit | commitdiff | tree | snapshot
2016-12-07 gmungocJAL-2344 handle null format, simplify JalviewFileChoose... commit | commitdiff | tree | snapshot
2016-11-30 Jim ProcterMerge branch 'features/JAL-2320_closeChimeraAction... commit | commitdiff | tree | snapshot
2016-11-30 gmungocJAL-2344 use ".cif" for saved mmCIF file (and refactor... commit | commitdiff | tree | snapshot
2016-11-29 gmungocJAL-2329 tests to confirm behaviour of Java extended... commit | commitdiff | tree | snapshot
2016-11-29 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-11-29 gmungocJAL-2344 corrected conversion of Type enum to FileFormat features/JAL-2344FileFormatI commit | commitdiff | tree | snapshot
2016-11-29 Jim ProcterMerge branch 'documentation/JAL-2325_release2101' into... commit | commitdiff | tree | snapshot
2016-11-29 Jim ProcterJAL-2325 update release date in whatsNew commit | commitdiff | tree | snapshot
2016-11-29 gmungocJAL-2344 FileFormat.isStructureFile replaces commit | commitdiff | tree | snapshot
2016-11-29 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... commit | commitdiff | tree | snapshot
2016-11-29 Jim ProcterMerge branch 'documentation/JAL-2325_release2101' into... commit | commitdiff | tree | snapshot
2016-11-28 gmungocMerge branch 'develop' into trialMerge commit | commitdiff | tree | snapshot
2016-11-28 Jim ProcterJAL-2325 JAL-1878 update minimum versions of JRE for... commit | commitdiff | tree | snapshot
2016-11-28 tcofoegbuMerge branch 'features/JAL-2326_JOptionPane-refactoring... commit | commitdiff | tree | snapshot
2016-11-28 gmungocJAL-2344 added FileFormatI.isStructureFile() commit | commitdiff | tree | snapshot
2016-11-28 gmungocJAL-2345 cache generated ImageIcon per file path commit | commitdiff | tree | snapshot
2016-11-28 Jim ProcterMerge branch 'documentation/JAL-2325_release2101' into... commit | commitdiff | tree | snapshot
2016-11-28 Jim ProcterJAL-2325 finalise release notes commit | commitdiff | tree | snapshot
2016-11-25 gmungocJAL-2344 dynamically determine recognised extensions... commit | commitdiff | tree | snapshot
2016-11-25 Jim ProcterMerge branch 'documentation/JAL-2325_release2101' into... commit | commitdiff | tree | snapshot
2016-11-25 Jim ProcterJAL-2325 JAL-2273 update vms bound to different installers commit | commitdiff | tree | snapshot
2016-11-25 Jim ProcterJAL-2325 more ignores on sourcedist build commit | commitdiff | tree | snapshot
2016-11-25 gmungocMerge branch 'develop' into trialMerge commit | commitdiff | tree | snapshot
2016-11-25 gmungocJAL-2344 override to ignore (obsolete?) JalviewFileView commit | commitdiff | tree | snapshot
2016-11-25 gmungocJAL-2344 use .equals() to compare FileFormatI objects commit | commitdiff | tree | snapshot
2016-11-25 gmungocJAL-2344 correct roundtrip test to exclude Jalview... commit | commitdiff | tree | snapshot
2016-11-24 tcofoegbuJAL-2326 added setup method for JvOptionPane in all... features/JAL-2326_JOptionPane-refactoring commit | commitdiff | tree | snapshot
2016-11-24 gmungocDistinguish text-only output formats and others (.jar... commit | commitdiff | tree | snapshot
2016-11-24 tcofoegbuJAL-2326 updated references of JOptionPane to JvOptionPane commit | commitdiff | tree | snapshot
2016-11-24 Jim ProcterMerge branch 'documentation/JAL-2325_release2101' into... commit | commitdiff | tree | snapshot
2016-11-24 Jim ProcterJAL-2325 exclude .class and .* files (install anywhere... commit | commitdiff | tree | snapshot
2016-11-24 Jim ProcterMerge branch 'documentation/JAL-2325_release2101' into... commit | commitdiff | tree | snapshot
2016-11-24 Jim ProcterJAL-2325 applied BSD license for chimera/StrucViz2... commit | commitdiff | tree | snapshot
2016-11-24 gmungocFurther tweaks to get tests passing commit | commitdiff | tree | snapshot
2016-11-24 tcofoegbuJAL-2326 added layer of abstraction between Jalview... commit | commitdiff | tree | snapshot
2016-11-24 Jim ProcterJAL-2325 apply license to new source files commit | commitdiff | tree | snapshot
2016-11-24 Jim ProcterJAL-2325 update release date to next Tuesday commit | commitdiff | tree | snapshot
2016-11-24 gmungocFileFormatI further tweaks, clean compile commit | commitdiff | tree | snapshot
2016-11-24 Jim ProcterJAL-2325 tidy up release notes commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2325 remove 2.10.0 what’s new commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2325 latest release to 2.10 commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-1738 Ctrl/Cmd/Alt modifiers and mention that B... commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-1738 hint about using the task switching key combin... commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-1738 mention Ctrl/Cmd/Alt modifiers and mention... commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-1738 mention Ctrl or Cmd for toggle behaviour in... commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2325 updated what’s new for 2.10.1 commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2325 reword ‘tame tooltip’ JAL-1723 release note commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2325 rejig authors and add Kira commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2282 JAL-2325 added link to help text from release... commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2325 updated what’s new for 2.10.1 commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2282 revised docs about warning message. commit | commitdiff | tree | snapshot
2016-11-23 gmungocJAL-1738 Spanish versions added commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterMerge branch 'documentation/JAL-2325_release2101' into... commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterJAL-2325 JAL-2332 release notes commit | commitdiff | tree | snapshot
2016-11-23 Jim ProcterMerge branch 'documentation/JAL-2325_release2101' into... commit | commitdiff | tree | snapshot
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