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2013-11-25 Jim ProcterMerge branch 'JAL-1139_proguard' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-11-25 Jim ProcterJAL-1139 specified SHA1WithRSA for sig algorithm and... commit | commitdiff | tree | snapshot
2013-11-25 Jim Procteradivce from ant.apache.org/manual/Tasks/signjar.html re commit | commitdiff | tree | snapshot
2013-11-25 Jim ProcterJAL-1139 need to explicitly specify SHA1 for java 6... commit | commitdiff | tree | snapshot
2013-11-25 Jim ProcterMerge branch 'JAL-1139_proguard' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-11-25 Jim ProcterJAL-1139 supress dependency warnings from proguard commit | commitdiff | tree | snapshot
2013-11-25 Jim ProcterMerge branch 'JAL-1139_proguard' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-11-25 Jim ProcterJAL-1139 latest version of proguard needed for Java... commit | commitdiff | tree | snapshot
2013-11-07 Jim ProcterMerge branch 'JAL-1286' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-11-07 Jim ProcterJAL-1286 additional tests to ensure that non-GZ files... commit | commitdiff | tree | snapshot
2013-11-07 Jim ProcterJAL-1286 check if local file ends with .gz and opens... commit | commitdiff | tree | snapshot
2013-11-07 Jim ProcterJAL-1286 test input of gzip stream from local file commit | commitdiff | tree | snapshot
2013-11-05 Jim ProcterJAL-1400 found a fix for the sandbox exception - need... commit | commitdiff | tree | snapshot
2013-11-05 Jim Procterexperiment with reinstating the sandbox permissions commit | commitdiff | tree | snapshot
2013-11-05 Jim ProcterJAL-1400 try putting explicit domain for jalviewLite... commit | commitdiff | tree | snapshot
2013-11-05 Jim ProcterJAL-1400 Always create indices for jar before signing commit | commitdiff | tree | snapshot
2013-11-05 Jim ProcterJAL-1400 sign everything ! commit | commitdiff | tree | snapshot
2013-11-05 Jim ProcterJAL-1400 explicit security settings for applet commit | commitdiff | tree | snapshot
2013-11-05 Jim ProcterJAL-1400 explicit security permissions for Desktop commit | commitdiff | tree | snapshot
2013-11-01 Jalview build... JAL-1403 make sure MacOS installer searchers for the... commit | commitdiff | tree | snapshot
2013-11-01 Jalview build... JAL-1403 make sure MacOS installer searchers for the... commit | commitdiff | tree | snapshot
2013-10-23 Jalview build... Merge branch 'JAL-1403' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-10-23 Jalview build... JAL-1403 updated paths to IA 2013 and additional build... commit | commitdiff | tree | snapshot
2013-10-23 Jalview build... JAL-1403 upgraded the InstallAnywhere build file to... commit | commitdiff | tree | snapshot
2013-10-17 Jim ProcterMerge branch 'JAL-1397' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-10-17 Jim Procterfix for JAL-1398 - original colourscheme is enabled... commit | commitdiff | tree | snapshot
2013-10-17 Jim ProcterJAL-1233 TODO concerning the way we propagate annotatio... commit | commitdiff | tree | snapshot
2013-10-17 Jim ProcterJAL-1397 make sure annotation colourscheme is up to... commit | commitdiff | tree | snapshot
2013-10-17 Jim ProcterJAL-1397 store colour by sequence and originalColour... commit | commitdiff | tree | snapshot
2013-10-17 Jim ProcterJAL-1397 make sure ColourschemeI instances are up to... commit | commitdiff | tree | snapshot
2013-10-17 Jim ProcterJAL-1397 propagate any consensus/conservation coloursch... commit | commitdiff | tree | snapshot
2013-10-17 Jim ProcterJAL-1397 getters for originalColours flag commit | commitdiff | tree | snapshot
2013-10-16 Jim ProcterMerge branch 'JAL-1395' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-10-16 Jim ProcterJAL-1395 do not calculate non-gap consensus when no... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterMerge branch 'JAL-1292_regression' into Release_2_8_1_B... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1164 regression on JAL-1292 use bitset to mark... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterMerge branch 'JAL-1164_disorderforselection' into Relea... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1164 regression on JAL-1292 use bitset to mark... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterMerge branch 'JAL-1164_disorderforselection' into Relea... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1164 scope bySequence analysis methods to start... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1114 javadoc commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1114 promote start/end attributes to gettable field... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1114 API javadoc commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1164 only predict on currently selected sequences... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1385 expose core view model methods in interface commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterMerge branch 'Release_2_8_1_Branch_i18n' into Release_2... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1354 watch for exceptions when initialising (Securi... commit | commitdiff | tree | snapshot
2013-10-11 Jim ProcterJAL-1354 ensure resource bundles are copied into Jalvie... commit | commitdiff | tree | snapshot
2013-10-08 Jim Procterreindexed Jmol jar with 'jar -i' to fix JAL-1389 commit | commitdiff | tree | snapshot
2013-10-08 Jim ProcterMerge branch 'Release_2_8_1_Branch_i18n' into Release_2... commit | commitdiff | tree | snapshot
2013-10-08 Jim Procterlocalisation for JAL-1384 and JAL-1388 commit | commitdiff | tree | snapshot
2013-10-08 Jim ProcterMerge branch 'Release_2_8_1_Branch' into Release_2_8_1_... commit | commitdiff | tree | snapshot
2013-10-08 Jim ProcterMerge branch 'JAL-643_JAL-1384' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-10-08 Jim ProcterJAL-1384 JAL-1388 revised popup menu documentation... commit | commitdiff | tree | snapshot
2013-10-08 Jim ProcterJAL-1384 Create Group in selection popup menu commit | commitdiff | tree | snapshot
2013-10-08 Jim Procterfix for JAL-1387 commit | commitdiff | tree | snapshot
2013-10-08 Jim ProcterJAL-1384 documentation and consistent ordering for... commit | commitdiff | tree | snapshot
2013-10-08 Jim ProcterJAL-1384 group/ungroup sequences with command/ctrl... commit | commitdiff | tree | snapshot
2013-10-07 Jim ProcterJAL-1385 refactor logic to AlignmentViewController commit | commitdiff | tree | snapshot
2013-10-07 Jim ProcterJAL-1385 JAL-535 refactor sequence colour settings... commit | commitdiff | tree | snapshot
2013-10-07 Jim ProcterJAL-1385 expose core view model methods in interface commit | commitdiff | tree | snapshot
2013-10-07 Jim ProcterJAL-1385 Alignment view controller logic implementation... commit | commitdiff | tree | snapshot
2013-10-05 Jim ProcterMerge branch 'JAL-1378_jb2.1cli' into Release_2_8_1_Branch commit | commitdiff | tree | snapshot
2013-10-05 Jim ProcterJAL-1379 graceful degradation to legacy service when... commit | commitdiff | tree | snapshot
2013-10-05 Jim ProcterJAL-1379 JAL-1378 exclusion list property to ignore... commit | commitdiff | tree | snapshot
2013-10-05 Jim ProcterJAL-1378 hack to place 'Predictors' into Secondary... commit | commitdiff | tree | snapshot
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
2013-09-18 Jim ProcterJAL-1355 - fix compilation errors: typos and missing... commit | commitdiff | tree | snapshot
2013-09-13 Jim Proctertweak - v is lowercase in Jalview commit | commitdiff | tree | snapshot
2013-09-13 darolmari18n how to 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
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