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Merge branch 'JAL-1314_headlessFlag' into develop
2013-06-13 Jim ProcterMerge branch 'JAL-1314_headlessFlag' into develop
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2013-06-13 Jim ProcterJAL-1314 allow 'nogui' and 'headless' as synonyms for...
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2013-06-13 Jim ProcterJAL-1314 test for common variants of -nodisplay performing...
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2013-06-13 Jim ProcterMerge branch 'JAL-1315_headlessEPS' into develop
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2013-06-13 Jim ProcterMerge branch 'JAL-1315_headlessEPS' into Release_2_8_Branch
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2013-06-13 Jim Procterfix for JAL-1315
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2013-06-13 Jim ProcterJAL-1315 test for exit and successful generation of...
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2013-06-11 Jim Procterchange to release version of VARNA-3-9
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2013-06-09 Jim ProcterJAL-674 avoid runtime dependency on annotate3d webservice...
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2013-06-09 Jim ProcterJAL-674 - update applet build dependency on VARNA
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2013-06-09 Jim ProcterMerge branch '2_8_1_patch_multiharmony' into develop
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2013-06-09 Jim ProcterMerge branch '2_8_1_patch_multiharmony' into Release_2_8_Branch
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2013-06-09 Jim Procterfix for JAL-1298
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2013-06-09 Jim ProcterJAL-715 - TODO
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2013-06-07 Jim ProcterMerge branch '2_8_1_patch_multiharmony' into develop
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2013-06-07 Jim ProcterMerge branch '2_8_1_patch_multiharmony' into Release_2_8_Branch
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2013-06-07 Jim ProcterJAL-1309 fix broken partition computation for adding...
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2013-06-07 Jim ProcterJAL-945 uniquify prior to submission
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2013-06-07 Jim Procterformatting
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2013-06-07 Jim ProcterJAL-715 allow headless construction for testing
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2013-06-07 Jim ProcterJAL-724 JAL-715 refactor and create new test for RSBS...
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2013-06-07 Jim Procterfix for JAL-1246
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2013-06-07 Jim ProcterJAL-1307 patch to squash number format exceptions when...
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2013-06-07 Jim ProcterJAL-1300 documentation
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2013-06-07 Jim ProcterMerge branch 'JAL-1161_optimisingAnnotationPanel' into...
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2013-05-31 Jim ProcterJAL-1259 patch to avoid NPE
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2013-05-31 Jim ProcterMerge branch 'JAL-1259_hotfix' into Release_2_8_Branch
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2013-05-31 Jim ProcterJAL-1259 patch to avoid NPE
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2013-05-24 Jim ProcterMerge branch 'JAL-1161_optimisingAnnotationPanel' ...
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2013-05-24 Jim ProcterJAL-???? notes on summarisation and analysis of annotation...
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2013-05-24 Jim ProcterJAL-1291 reinstate fastPaint flag manipulation to make...
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2013-05-24 Jim ProcterJAL-1291 TODO: revised graphGroup model so grouped...
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2013-05-24 Jim ProcterJAL-1291 - don't touch the graphics object until after...
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2013-05-24 Jim ProcterJAL-1291 conditional output of rendering debugging...
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2013-05-24 Jim Procterpatch for JAL-1300 fixes JAL-1294: read and write COMBINE...
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2013-05-24 Jim ProcterJAL-1300 test and example data for parsing annotation...
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2013-05-24 Jim ProcterJAL-1295 test to demonstrate JAL-1294 (caused by JAL...
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2013-05-24 Jim ProcterJAL-1295 refactored Jws2 discovery bootstrap code to...
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2013-05-24 Jim ProcterJAL-1295 relaxed test for Annotation element equivalence...
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2013-05-24 Jim ProcterJAL-381 Desktop.addInternalFrame cannot be called in...
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2013-05-24 Jim ProcterJAL-1299 fix: ensure a new graphGroup is created if...
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2013-05-24 Jim ProcterJAL-1295 JAL-1296 clearer assertion failed message
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2013-05-24 Jim ProcterJAL-1295 JAL-1297 enhance test to check graph visiblity...
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2013-05-24 Jim Procterfix for JAL-1297: COMBINE output now follows specification...
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2013-05-24 Jim ProcterJAL-1296 JAL-1291 JAL-1297 JAL-1295 JAL-1294
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2013-05-24 Jim ProcterJAL-1291 JAL-1297 JAL-1295 JAL-1294 allow alignment...
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2013-05-24 Jim Procterjavadoc and formatting
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2013-05-24 Jim ProcterJAL-1297 JAL-1295 JAL-1294 sensible toString for benefit...
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2013-05-24 Jim ProcterJAL-1297 JAL-1295 JAL-1294 improve test logic for comparing...
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2013-05-24 Jim ProcterJAL-1296 reinstated tab characters so example annotation...
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2013-05-24 Jim ProcterJAL-1070 - [ not a real patch ] - include offending...
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2013-05-24 Jim ProcterJAL-966 paintrefresher should be abstract [ Merge branch...
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2013-05-24 Jim ProcterJAL-1161 conditional parameters for controlling clipping
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2013-05-24 Jim ProcterJAL-1292 avoid exception by using bitset of arbitrary...
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2013-05-24 Jim ProcterJAL-1161 changed signature to allow clipping bounds...
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2013-05-24 Jim Procterformatting
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2013-05-24 Jim ProcterJAL-1161 only trigger an annotation repaint in unwrapped...
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2013-05-24 Jim ProcterJAL-1161 enable fastPaint for nudges from scroll bars...
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2013-05-24 Jim ProcterJAL-1161 stick to api
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2013-05-24 Jim Proctertypo
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2013-05-21 Jim ProcterMerge branch 'JAL-1199-Stk_writing' into Release_2_8_Branch
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2013-05-21 Jim Proctersplit test for general Stockholm IO consistency (JAL...
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2013-05-21 Jim ProcterJAL-1199 JAL-1272 remove main() method from test class
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2013-05-21 Jim Procterformatting
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2013-05-21 Jim ProcterJAL-1199 JAL-1272 refactored Natasha's test to a generic...
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2013-05-13 Jim ProcterJAL-1286 URL stream reader tries to use a GZIPInputStream...
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2013-05-13 Jim ProcterMerge branch 'JAL-1289_initCallBack' into Release_2_8_Branch
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2013-05-13 Jim ProcterMerge branch 'JAL-1289_initCallBack' into develop
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2013-05-13 Jim ProcterJAL-1289 call oninit callback even if no alignment...
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2013-04-12 Jim ProcterMerge branch 'JAL-1286_gzip' into Release_2_8_Branch
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2013-04-12 Jim ProcterJAL-1286 URL stream reader tries to use a GZIPInputStream...
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2013-02-06 jprocterMerge branch 'Release_2_8_Branch' into JAL-1199-Stk_writing
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2013-02-06 jprocterMerge branch 'JAL-1199-Stk_writing' into Release_2_8_Branch
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2013-02-06 jprocterJAL-1265 basic support for parsing database accessions...
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2013-02-06 jprocterJAL-1199 added test for Rfam Stockholm file example
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2013-02-06 jprocterJAL-1199 refactored stockholm test code from main class...
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2013-02-05 jprocterMerge branch 'JAL-1199-Stk_writing' into Release_2_8_Branch
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2013-02-05 jprocterformatting
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2013-02-05 jprocterMerge branch 'JAL-1199-Stk_writing' into Release_2_8_Branch
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2013-01-20 jprocterMerge branch 'Dbfetch_hotfix-JAL-1238' into develop
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2013-01-20 jprocterMerge branch 'Dbfetch_hotfix-JAL-1238' into Release_2_8_Branch
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2013-01-18 jprocterJAL-1238 test to see if the primary Uniprot source...
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2013-01-18 jprocterJAL-1238 order to place primary sources before lower...
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2013-01-18 jprocterJAL-1238 method to test if DAS source is a primary...
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2013-01-18 jprocterJAL-1238 tier index indicating distance of a source...
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2013-01-18 jprocterMerge branch 'JAL-1254-hotfix' into develop
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2013-01-18 jprocterMerge branch 'JAL-1254-hotfix' into Release_2_8_Branch
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2013-01-18 jprocterJAL-1255 don't show 'Right click to add annotations...
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2013-01-18 jprocterJAL-1254 patch for NPE in annotation renderer when...
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2012-12-11 jprocterJAL-1217 check and avoid NPE if no datastore object...
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2012-12-11 jprocterJAL-1217 report exception for service when no datastore...
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2012-12-04 jprocterbogus source dir for jmol (only for jim - fix for yourself!)
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2012-12-04 jprocterJAL-1140 - handled VARNA specific RNA exceptions within...
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2012-12-04 jprocterJAL-1140 - handle VARNA specific RNA exceptions within...
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2012-12-04 jprocterJAL-1140 - IO classes should only raise generic IOExceptions
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2012-12-04 jprocterJAL-1216 switch to official release of VARNA 3.9
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2012-12-04 jprocterJAL-1213 JAL-674 robust test with an existing structure...
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2012-12-04 jprocterJAL-1214 todo
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2012-12-04 jprocterJAL-1213 JAL-674 - import a PDB file using Jmol data...
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2012-12-04 jprocterJAL-674 commented out annotate3d calling code for Jmol...
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