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jalview.git
2017-01-09 gmungocJAL-2371 pull up isNucleotide to SequenceCollectionI commit | commitdiff | tree | snapshot
2017-01-09 gmungocJAL-2371 remove ColourSchemeI.findColour(c), pure inter... commit | commitdiff | tree | snapshot
2017-01-06 gmungocJAL-2371 slight simplification of findColour overrides commit | commitdiff | tree | snapshot
2017-01-06 gmungocJAL-2371 correct Clustal, Blosum, PID colouring of... commit | commitdiff | tree | snapshot
2017-01-06 gmungocMerge branch 'features/JAL-2360colourSchemeApplicabilit... commit | commitdiff | tree | snapshot
2017-01-06 gmungocJAL-2360 findColour() with no args removed from ColourS... commit | commitdiff | tree | snapshot
2017-01-06 gmungocMerge branch 'features/JAL-2360colourSchemeApplicabilit... commit | commitdiff | tree | snapshot
2017-01-06 gmungocMerge branch 'develop' into features/JAL-2360colourSche... 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-2371 add test for toggling ignore gaps with PID... commit | commitdiff | tree | snapshot
2017-01-05 gmungocMerge branch 'features/JAL-2360colourSchemeApplicabilit... commit | commitdiff | tree | snapshot
2017-01-05 gmungocMerge branch 'develop' into features/JAL-2360colourSche... commit | commitdiff | tree | snapshot
2017-01-05 gmungocJAL-2373 set state of Above PID, By Conservation in... commit | commitdiff | tree | snapshot
2017-01-05 gmungocJAL-2371 tests added commit | commitdiff | tree | snapshot
2017-01-04 gmungocJAL-2371 CollectionColourScheme wraps ColourSchemeI commit | commitdiff | tree | snapshot
2016-12-29 gmungocJAL-2630 first pass groovy colour scheme (with slight... commit | commitdiff | tree | snapshot
2016-12-23 gmungocJAL-2360 removed UserDefinedColours.userColourSchemes commit | commitdiff | tree | snapshot
2016-12-23 gmungocJAL-2120 JAL-2360 remove obsolete PDBViewer commit | commitdiff | tree | snapshot
2016-12-22 gmungocJAL-2360 fix bug that prematurely created a SequenceGroup commit | commitdiff | tree | snapshot
2016-12-22 gmungocJAL-2360 structure viewers now using ColourMenuHelper... commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 set new/loaded colour scheme name correctly commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 simplified code to create a new colour scheme commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 added a table to show score colours commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 ColourMenuHelper now builds and selects items... commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 comment only commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 tidy up, simplify isApplicableTo test commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 no RNAHelices colouring for groups commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2361 Blosum is enabled for peptide commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-1421 add types to Map commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 fix incorrect action on Cancel user defined... commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 tidy spelling and file contents order only commit | commitdiff | tree | snapshot
2016-12-21 gmungocJAL-2360 Javadoc and test cases for findAnnotation commit | commitdiff | tree | snapshot
2016-12-20 gmungocJAL-2360 testRegisterColourScheme to demonstrate a... commit | commitdiff | tree | snapshot
2016-12-20 gmungocJAL-2360 ColourSchemes holds configured schemes, AlignF... commit | commitdiff | tree | snapshot
2016-12-19 gmungocJAL-2360 amended toAppletParameter() for reproducible... commit | commitdiff | tree | snapshot
2016-12-19 gmungocJAL-2361 select colour menu item by matching its name... commit | commitdiff | tree | snapshot
2016-12-16 gmungocJAL-2356 enhanced unit test to verify reuse (or not... commit | commitdiff | tree | snapshot
2016-12-16 Jim ProcterJAL-2360 report line number when threshold cannot be... commit | commitdiff | tree | snapshot
2016-12-16 gmungocJAL-2360 added UserColourScheme.toAppletParameter+test... commit | commitdiff | tree | snapshot
2016-12-16 gmungocJAL-2360 getColour() renamed to getColourScheme(),... commit | commitdiff | tree | snapshot
2016-12-16 gmungocJAL-1705 JAL-98 use SortedMap as more accurate type... commit | commitdiff | tree | snapshot
2016-12-16 gmungocJAL-2360 refactoring for JalviewColourScheme enum, commit | commitdiff | tree | snapshot
2016-12-16 gmungocJAL-1354 use i18n text for expected value commit | commitdiff | tree | snapshot
2016-12-14 gmungocJAL-2360 test added commit | commitdiff | tree | snapshot
2016-12-14 gmungocJAL-2360 added check for null annotations array commit | commitdiff | tree | snapshot
2016-12-14 gmungocJAL-1544 JAL-2360 reformatted help page a bit nicer... commit | commitdiff | tree | snapshot
2016-12-14 Jim ProcterMerge branch 'patch/JAL-2197_jpredforjnets' into develop commit | commitdiff | tree | snapshot
2016-12-13 gmungocJAL-2365 test for lightgray, darkgray not lightGray... commit | commitdiff | tree | snapshot
2016-12-13 gmungocJAL-2360 code formatting only and if-else changed to... commit | commitdiff | tree | snapshot
2016-12-13 gmungocJAL-2361 adding items to applet colour menus, TCoffee... commit | commitdiff | tree | snapshot
2016-12-12 gmungocJAL-2361 extract methods to (re-)build colour menu commit | commitdiff | tree | snapshot
2016-12-12 gmungocJAL-2360 simplify nucleotide flag, remove setter commit | commitdiff | tree | snapshot
2016-12-12 gmungocJAL-2361 use consistent colour names on menus commit | commitdiff | tree | snapshot
2016-12-12 gmungocJAL-1544 backgroud -> background commit | commitdiff | tree | snapshot
2016-12-12 gmungocJAL-2362 return correct lower-case colour; Javadoc... commit | commitdiff | tree | snapshot
2016-12-12 gmungocJAL-2632 corrected lookup of residue colour 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
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