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2013-10-05 Jim ProcterJAL-1364 use gapMap to map RNAalifold annotation onto... commit | commitdiff | tree | snapshot
2013-10-05 Jim ProcterJAL-1379 JAL-1358 only enable/disable menu entries... commit | commitdiff | tree | snapshot
2013-10-04 Jim ProcterJAL-1383 - disable startup of the Envision2 workflow... commit | commitdiff | tree | snapshot
2013-10-04 Jim ProcterJAL-940 JAL-1378 EOL comment on JWS v1 services commit | commitdiff | tree | snapshot
2013-10-04 Jim Procterupdate JABA client dependency in InstallAnywhere build commit | commitdiff | tree | snapshot
2013-10-04 Jim ProcterMerge branch 'RNAalifold' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-10-04 Jim Procterfix for JAL-1380 and efficiency todo for JAL-1381 commit | commitdiff | tree | snapshot
2013-10-04 Jim ProcterJAL-1378 JWS-71 update to from-source build of JABA... commit | commitdiff | tree | snapshot
2013-09-25 Jim ProcterJAL-1365 test that RNAAliFold service settings are... commit | commitdiff | tree | snapshot
2013-09-25 Jim Procterformatting commit | commitdiff | tree | snapshot
2013-09-25 Jim ProcterJAL-1365 unified GUI building for AACon and RNAAliFold... commit | commitdiff | tree | snapshot
2013-09-25 Jim ProcterJAL-1365 use AlignAnalysisUIText class to provide metad... commit | commitdiff | tree | snapshot
2013-09-25 Jim ProcterJAL-1365 refactored core methods from RNAAliFold and... commit | commitdiff | tree | snapshot
2013-09-25 Jim ProcterJAL-1365 new metadata class to describe instantaneous... commit | commitdiff | tree | snapshot
2013-09-25 Jim ProcterJAL-1270 nominal jalview version string for projects... commit | commitdiff | tree | snapshot
2013-09-25 Jim ProcterJAL-1270 Desktop.instance is null during headless jalvi... commit | commitdiff | tree | snapshot
2013-09-20 Jim Procterformatting commit | commitdiff | tree | snapshot
2013-09-03 Jim ProcterMerge branch 'JAL-1373_precision' into RNAalifold commit | commitdiff | tree | snapshot
2013-09-03 Jim ProcterMerge branch 'JAL-1373_precision' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-09-03 Jim ProcterJAL-1373 tweak precision calculation so alignments... commit | commitdiff | tree | snapshot
2013-09-03 Jim ProcterJAL-920 compute a consensus for single sequence commit | commitdiff | tree | snapshot
2013-09-02 Jim ProcterMerge branch 'JAL-1373_precision' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-09-02 Jim ProcterJAL-1373 JAL-520 wrap tooltips for columns in annotatio... commit | commitdiff | tree | snapshot
2013-09-02 Jim ProcterJAL-1373 generate percentages with appropriate precision commit | commitdiff | tree | snapshot
2013-09-02 Jim ProcterJAL-1373 pass size of sequence set to consensus renderi... commit | commitdiff | tree | snapshot
2013-09-02 Jim ProcterJAL-1358 monday morning commits :( commit | commitdiff | tree | snapshot
2013-09-02 Jim ProcterJAL-1358 jabaws not jaba commit | commitdiff | tree | snapshot
2013-09-02 Jim ProcterJAL-1358 update jabaws client for installanywhere commit | commitdiff | tree | snapshot
2013-09-02 Jim ProcterJAL-1358 remove old v2 jaba min-client commit | commitdiff | tree | snapshot
2013-08-31 Daniel BartonBrief html documentation entry for RNAalifold under... commit | commitdiff | tree | snapshot
2013-08-30 Daniel BartonColour be RNA helices bug fixed commit | commitdiff | tree | snapshot
2013-08-30 Daniel BartonJAL-1358 Cleaned up RNAalifoldClient.java. RNA helices... commit | commitdiff | tree | snapshot
2013-08-28 Daniel BartonRNAalifoldClient updated to be more like AAConClient... commit | commitdiff | tree | snapshot
2013-08-27 Daniel BartonJAL-1358 jalview displays some RNA struture annotation... commit | commitdiff | tree | snapshot
2013-08-27 Jim ProcterMerge branch 'JAL-1359_patch' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-08-27 Jim ProcterJAL-1359 simpler logic for deciding if all threads... commit | commitdiff | tree | snapshot
2013-08-27 Daniel BartonMerge remote-tracking branch 'origin/Release_2_8_1_Bran... commit | commitdiff | tree | snapshot
2013-08-27 Daniel BartonJAL-1358 RNAStructExportImport test file mirrors Disord... commit | commitdiff | tree | snapshot
2013-08-27 Jim ProcterMerge branch 'JAL-1332_regression' into Release_2_8_1_B... commit | commitdiff | tree | snapshot
2013-08-27 Jim ProcterJAL-1332 regression from 7ce72ca7fadf35a249427ecb836b22... commit | commitdiff | tree | snapshot
2013-08-27 Jim ProcterJAL-1332 - defer SSM provision to root provider for... commit | commitdiff | tree | snapshot
2013-08-27 Daniel BartonJAL-1358 Just the eclipse project/classpath files so... commit | commitdiff | tree | snapshot
2013-08-22 Daniel BartonJalview builds sucessfully and runs from eclipse commit | commitdiff | tree | snapshot
2013-08-20 Jim ProcterMerge branch 'JAL-1353-bugdemo' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-08-20 Jim ProcterJAL-1353 test demonstrating the freeze with minimal... commit | commitdiff | tree | snapshot
2013-07-12 Jim ProcterMerge branch 'JAL-1347' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-07-12 Jim ProcterJAL-1347 RNA Structure consensus follows the alignment... commit | commitdiff | tree | snapshot
2013-07-12 Jim ProcterJAL-1347 flow control for display of profile data is... commit | commitdiff | tree | snapshot
2013-07-11 Jim ProcterMerge branch 'JAL-1347' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-07-11 Jim ProcterJAL-1347 identify and set rendering settings for consen... commit | commitdiff | tree | snapshot
2013-07-11 Jim ProcterJAL-1347 refactor logic for setting display flags for... commit | commitdiff | tree | snapshot
2013-07-11 Jim ProcterJAL-1347 make it efficient to call getConsensus to... commit | commitdiff | tree | snapshot
2013-07-09 Jim ProcterMerge branch 'JAL-895/reopen' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-07-09 Jim ProcterJAL-895 - patch example files with correct Fe positions commit | commitdiff | tree | snapshot
2013-07-08 Jim ProcterMerge branch 'Release_2_8_1_Branch' into Release_2_8_Branch commit | commitdiff | tree | snapshot
2013-07-08 Jim Proctermake sure 'example alignment' can be found in documentation commit | commitdiff | tree | snapshot
2013-07-07 Jim ProcterMerge branch 'structures/JAL-1016' into Release_2_8_Branch commit | commitdiff | tree | snapshot
2013-07-07 Jim ProcterJAL-1345 - set nSeconds arg for chemapps.stolaf.edu... commit | commitdiff | tree | snapshot
2013-07-07 Jim ProcterJAL-1016 Instruct user to report situations where the... commit | commitdiff | tree | snapshot
2013-07-07 Jim ProcterJAL-1332 make SSM context discovery safer (particularly... commit | commitdiff | tree | snapshot
2013-07-07 Jim ProcterJAL-583 refactor todo about separating code to construc... commit | commitdiff | tree | snapshot
2013-07-07 Jim Procterfix for JAL-1016 - wait around until we have a complete... commit | commitdiff | tree | snapshot
2013-07-07 Jim ProcterJAL-1016 - do our assertions immediatly commit | commitdiff | tree | snapshot
2013-06-23 Jim ProcterMerge branch 'bug/JAL-1230' into Release_2_8_Branch commit | commitdiff | tree | snapshot
2013-06-23 Jim ProcterJAL-1230 update alignment state for annotation edits... commit | commitdiff | tree | snapshot
2013-06-23 Jim ProcterJAL-1230 proxy method for synchronising internal Alignm... commit | commitdiff | tree | snapshot
2013-06-23 Jim ProcterJAL-1230 simplify initialisation of consensus, conserva... commit | commitdiff | tree | snapshot
2013-06-23 Jim ProcterMerge branch 'bug/JAL-1230' into Release_2_8_Branch commit | commitdiff | tree | snapshot
2013-06-23 Jim ProcterMerge commit '72c628b' into Release_2_8_Branch commit | commitdiff | tree | snapshot
2013-06-22 Jim ProcterMerge branch 'feature/JAL-1330' into Release_2_8_Branch commit | commitdiff | tree | snapshot
2013-06-22 Jim ProcterJAL-1330 pick primary seqeunce data source for authorit... commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1230 comment unused code to avoid NPE commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1327 TODO commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1326 JAL-1327 update all graphline thresholds with... commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1241 - generate colour for all annotation values... commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterMerge branch 'JAL-1294_iupredexportimport' into Release... commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1325 formatting commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1325 JAL-1294 resolve SEQUENCE_REF and GROUP_REF... commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1294 JAL-1325 store graphline for individual annota... commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1294 JAL-1325 bugfix equals commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1294 JAL-1325 test annotation threshold line equiva... commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterMerge branch 'JAL-1321_jws2_tooltips' into Release_2_8_... commit | commitdiff | tree | snapshot
2013-06-21 Jim ProcterJAL-1127 set option widgets to service defaults only... commit | commitdiff | tree | snapshot
2013-06-19 Jim ProcterJAL-1240 avoid NPE when source has no proxy available commit | commitdiff | tree | snapshot
2013-06-19 Jim ProcterMerge branch 'JAL-1321_jws2_tooltips' into Release_2_8_... commit | commitdiff | tree | snapshot
2013-06-18 Jim ProcterJAL-1320 ascending alphabetical order commit | commitdiff | tree | snapshot
2013-06-18 Jim ProcterJAL-1320 preserve option/parameter order with LinkedHashMap commit | commitdiff | tree | snapshot
2013-06-18 Jim ProcterJAL-1320 sort options and parameters according to their... commit | commitdiff | tree | snapshot
2013-06-18 Jim Proctertypo commit | commitdiff | tree | snapshot
2013-06-18 Jim ProcterJAL-1321 don't show a tooltip for empty strings commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterMerge branch 'JAL-1319_jronn_npe' into Release_2_8_Branch commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterJAL-1319 (blacklist fix) check for presence of a score... commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterMerge branch 'JAL-1312_ambiguity_na' into Release_2_8_B... commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterJAL-1027 fix errors in alternative codon table commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterJAL-1027 check that ResidueProperties.codonHash2 is... commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterJAL-1027 use alternative codon table in ResidueProperti... commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterJAL-1035 option to allow 'STOP' codon to translate... commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterJAL-1312 patch for regression noticed after patch to... commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterJAL-1312 rewrite of code for first reported exception... commit | commitdiff | tree | snapshot
2013-06-17 Jim ProcterJAL-1312 formatting and more comprehensive test commit | commitdiff | tree | snapshot
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