jalview.git
2013-06-17 Jim ProcterJAL-1312 patch for regression noticed after patch to...
2013-06-17 Jim ProcterJAL-1312 rewrite of code for first reported exception...
2013-06-17 Jim ProcterJAL-1312 formatting and more comprehensive test
2013-06-17 Jim ProcterJAL-1312 remove unnecessary methods
2013-06-17 Jim ProcterJAL-1312 more helpful error message when translation...
2013-06-17 Jim ProcterJAL-529 - IUBMB nucleotide ambiguity codes and programm...
2013-06-17 Jim ProcterJAL-1318 - route warnings to stderr (need to find a...
2013-06-17 Jim ProcterJAL-1318 avoid failure if SequenceI objects don't have...
2013-06-17 Jim ProcterJAL-966 avoid using java.util.Vector
2013-06-17 Jim Proctertest for JAL-1312
2013-06-14 Jim ProcterMerge branch 'JAL-1316' into Release_2_8_Branch
2013-06-14 Jim ProcterJAL-1316 compact '' to '
2013-06-14 Jim ProcterJAL-1316 recognise and extract quoted region as nodename
2013-06-14 Jim ProcterJAL-1316 JAL-1313 newick IO test harness
2013-06-13 Jim ProcterMerge branch 'JAL-1314_headlessFlag' into Release_2_8_B...
2013-06-13 Jim ProcterJAL-1314 allow 'nogui' and 'headless' as synonyms for...
2013-06-13 Jim ProcterJAL-1314 test for common variants of -nodisplay perform...
2013-06-13 Jim ProcterMerge branch 'JAL-1315_headlessEPS' into Release_2_8_Branch
2013-06-13 Jim Procterfix for JAL-1315
2013-06-13 Jim ProcterJAL-1315 test for exit and successful generation of...
2013-06-09 Jim ProcterMerge branch '2_8_1_patch_multiharmony' into Release_2_...
2013-06-09 Jim Procterfix for JAL-1298
2013-06-09 Jim ProcterJAL-715 - TODO
2013-06-07 Jim ProcterMerge branch '2_8_1_patch_multiharmony' into Release_2_...
2013-06-07 Jim ProcterJAL-1309 fix broken partition computation for adding...
2013-06-07 Jim ProcterJAL-945 uniquify prior to submission
2013-06-07 Jim Procterformatting
2013-06-07 Jim ProcterJAL-715 allow headless construction for testing
2013-06-07 Jim ProcterJAL-724 JAL-715 refactor and create new test for RSBS...
2013-06-07 Jim Procterfix for JAL-1246
2013-06-07 Jim ProcterJAL-1307 patch to squash number format exceptions when...
2013-06-07 Jim ProcterJAL-1300 documentation
2013-05-31 Jim ProcterMerge branch 'JAL-1259_hotfix' into Release_2_8_Branch
2013-05-31 Jim ProcterJAL-1259 patch to avoid NPE
2013-05-24 Jim ProcterMerge branch 'JAL-1161_optimisingAnnotationPanel' ...
2013-05-24 Jim ProcterJAL-1291 reinstate fastPaint flag manipulation to make...
2013-05-24 Jim ProcterJAL-1291 TODO: revised graphGroup model so grouped...
2013-05-24 Jim ProcterJAL-1291 - don't touch the graphics object until after...
2013-05-24 Jim ProcterJAL-1291 conditional output of rendering debugging...
2013-05-24 Jim Procterpatch for JAL-1300 fixes JAL-1294: read and write COMBI...
2013-05-24 Jim ProcterJAL-1300 test and example data for parsing annotation...
2013-05-24 Jim ProcterJAL-1295 test to demonstrate JAL-1294 (caused by JAL...
2013-05-24 Jim ProcterJAL-1295 refactored Jws2 discovery bootstrap code to...
2013-05-24 Jim ProcterJAL-1295 relaxed test for Annotation element equivalenc...
2013-05-24 Jim ProcterJAL-381 Desktop.addInternalFrame cannot be called in...
2013-05-24 Jim ProcterJAL-1299 fix: ensure a new graphGroup is created if...
2013-05-24 Jim ProcterJAL-1295 JAL-1296 clearer assertion failed message
2013-05-24 Jim ProcterJAL-1295 JAL-1297 enhance test to check graph visiblity...
2013-05-24 Jim Procterfix for JAL-1297: COMBINE output now follows specificat...
2013-05-24 Jim ProcterJAL-1296 JAL-1291 JAL-1297 JAL-1295 JAL-1294
2013-05-24 Jim ProcterJAL-1291 JAL-1297 JAL-1295 JAL-1294 allow alignment...
2013-05-24 Jim Procterjavadoc and formatting
2013-05-24 Jim ProcterJAL-1297 JAL-1295 JAL-1294 sensible toString for benefi...
2013-05-24 Jim ProcterJAL-1297 JAL-1295 JAL-1294 improve test logic for compa...
2013-05-24 Jim ProcterJAL-1296 reinstated tab characters so example annotatio...
2013-05-24 Jim ProcterJAL-1070 - [ not a real patch ] - include offending...
2013-05-24 Jim ProcterJAL-966 paintrefresher should be abstract [ Merge branc...
2013-05-24 Jim ProcterJAL-1161 conditional parameters for controlling clipping
2013-05-24 Jim ProcterJAL-1292 avoid exception by using bitset of arbitrary...
2013-05-24 Jim ProcterJAL-1161 changed signature to allow clipping bounds...
2013-05-24 Jim Procterformatting
2013-05-24 Jim ProcterJAL-1161 only trigger an annotation repaint in unwrappe...
2013-05-24 Jim ProcterJAL-1161 enable fastPaint for nudges from scroll bars...
2013-05-24 Jim ProcterJAL-1161 stick to api
2013-05-24 Jim Proctertypo
2013-05-21 Jim ProcterMerge branch 'JAL-1199-Stk_writing' into Release_2_8_Branch
2013-05-21 Jim Proctersplit test for general Stockholm IO consistency (JAL... JAL-1199-Stk_writing
2013-05-21 Jim ProcterJAL-1199 JAL-1272 remove main() method from test class
2013-05-21 Jim Procterformatting
2013-05-21 Jim ProcterJAL-1199 JAL-1272 refactored Natasha's test to a generi...
2013-05-13 Jim ProcterMerge branch 'JAL-1289_initCallBack' into Release_2_8_B...
2013-05-13 Jim ProcterJAL-1289 call oninit callback even if no alignment...
2013-04-12 Jim ProcterMerge branch 'JAL-1286_gzip' into Release_2_8_Branch
2013-04-12 Jim ProcterJAL-1286 URL stream reader tries to use a GZIPInputStre...
2013-02-06 jprocterMerge branch 'Release_2_8_Branch' into JAL-1199-Stk_writing
2013-02-06 jprocterMerge branch 'JAL-1199-Stk_writing' into Release_2_8_Branch
2013-02-06 jprocterJAL-1265 basic support for parsing database accessions...
2013-02-06 jprocterJAL-1199 added test for Rfam Stockholm file example
2013-02-06 jprocterJAL-1199 refactored stockholm test code from main class...
2013-02-05 jprocterMerge branch 'JAL-1199-Stk_writing' into Release_2_8_Branch
2013-02-05 jprocterformatting
2013-02-05 jprocterMerge branch 'JAL-1199-Stk_writing' into Release_2_8_Branch
2013-01-20 jprocterMerge branch 'Dbfetch_hotfix-JAL-1238' into Release_2_8...
2013-01-18 jprocterJAL-1238 test to see if the primary Uniprot source...
2013-01-18 jprocterJAL-1238 order to place primary sources before lower...
2013-01-18 jprocterJAL-1238 method to test if DAS source is a primary...
2013-01-18 jprocterJAL-1238 tier index indicating distance of a source...
2013-01-18 jprocterMerge branch 'JAL-1254-hotfix' into Release_2_8_Branch
2013-01-18 jprocterJAL-1255 don't show 'Right click to add annotations...
2013-01-18 jprocterJAL-1254 patch for NPE in annotation renderer when...
2012-12-17 Natashatest for output a file in Stockholm format
2012-12-12 NatashaOutput accession number for file in stockholm format
2012-12-11 jprocterJAL-1217 check and avoid NPE if no datastore object...
2012-12-11 jprocterJAL-1217 report exception for service when no datastore...
2012-11-23 Natashastockholm file output code developed by Natasha Sherstneva
2012-11-21 jproctervalid URLs in website menu frame and fixed GA code
2012-11-17 jprocterMerge branch 'master' into Release_2_8_Branch
2012-11-15 Paolo Di TommasoFixed T-Coffee file scores parser to support extended...
2012-11-12 jprocterMerge branch 'Release_2_8_Branch' Release_2_8
2012-11-12 jprocterfinal tweaks to help landing page
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