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jalview.git
2019-08-21 gmungocJAL-3390 unit tests for buildShowStructuresCommand... commit | commitdiff | tree | snapshot
2019-08-21 gmungocJAL-3390 JAL-3400 revised commands to show structure... commit | commitdiff | tree | snapshot
2019-08-10 gmungocJAL-3404 fix up test compilation errors commit | commitdiff | tree | snapshot
2019-08-10 gmungocJAL-3404 explicit getModelForPdbFile lookup commit | commitdiff | tree | snapshot
2019-08-09 gmungocJAL-3990 fix typo in showStructures command for Chimera commit | commitdiff | tree | snapshot
2019-08-09 gmungocJAL-3390 refactoring tidy of colourBySequence call... commit | commitdiff | tree | snapshot
2019-08-09 gmungocJAL-3390 move StructureCommands to utils package commit | commitdiff | tree | snapshot
2019-08-08 gmungocJAL-3390 improved Jmol colour by sequence command ... commit | commitdiff | tree | snapshot
2019-08-08 gmungocJAL-3403 Fit To Window menu item for Jmol commit | commitdiff | tree | snapshot
2019-08-08 gmungocJAL-3390 StructureCommands atomspec helper, corrected... commit | commitdiff | tree | snapshot
2019-08-08 gmungocJAL-3402 suppress unmapped chains in View Chain menu feature/JAL-3400viewChainsMenu commit | commitdiff | tree | snapshot
2019-08-08 gmungocJAL-3400 include sequence name in View | Show Chain... commit | commitdiff | tree | snapshot
2019-08-07 gmungocJAL-3390 showSelectedChains pulled up to base class... commit | commitdiff | tree | snapshot
2019-08-07 gmungocMerge branch 'develop' into feature/JAL-3390hideUnmappe... commit | commitdiff | tree | snapshot
2019-08-07 gmungocJAL-3187 (fudge) look in both alignments for stored... feature/JAL-3187linkedFeatures commit | commitdiff | tree | snapshot
2019-08-07 gmungocMerge branch 'develop' into feature/JAL-3187linkedFeatures commit | commitdiff | tree | snapshot
2019-08-06 gmungocJAL-3390 first pass refactoring for JalviewJmolBinding... commit | commitdiff | tree | snapshot
2019-08-06 gmungocJAL-3390 pull up of getShownResidues() to AAStructureBi... commit | commitdiff | tree | snapshot
2019-08-05 gmungocJAL-3390 redraw structures if alignment only and hidden... commit | commitdiff | tree | snapshot
2019-08-05 gmungocJAL-3390 new View menu option to hide hidden regions... commit | commitdiff | tree | snapshot
2019-08-05 gmungocJAL-3390 Chimera showStructures() respects visible... commit | commitdiff | tree | snapshot
2019-08-05 gmungocJAL-3390 pull-up refactoring towards functional changes... commit | commitdiff | tree | snapshot
2019-08-02 gmungocJAL-3390 first draft of showing only visible alignment... commit | commitdiff | tree | snapshot
2019-07-31 gmungocJAL-3389 add .py to restored Chimera session filename... commit | commitdiff | tree | snapshot
2019-07-31 gmungocMerge branch 'bug/JAL-3388structureChooserSorting'... commit | commitdiff | tree | snapshot
2019-07-30 gmungocJAL-3198 more efficient Sequence.getDisplayId() commit | commitdiff | tree | snapshot
2019-07-30 gmungocJAL-3388 correct class for column 0 Ref Sequence bug/JAL-3388structureChooserSorting commit | commitdiff | tree | snapshot
2019-07-29 gmungocJAL-3386 correct wrapped width calculation for headless... commit | commitdiff | tree | snapshot
2019-07-29 gmungocJAL-3377 more reused of SeqCanvas.computeWrappedGeometry commit | commitdiff | tree | snapshot
2019-07-29 gmungocJAL-3377 add seq-annotations gap to cheight not to... commit | commitdiff | tree | snapshot
2019-07-29 gmungocJAL-3377 Javadoc added for getWrappedHeight() commit | commitdiff | tree | snapshot
2019-07-29 gmungocJAL-3377 corrected wrapped widths height for IdCanvas commit | commitdiff | tree | snapshot
2019-07-29 gmungocJAL-3377 include seq-annotation spacing in getWrappedHe... commit | commitdiff | tree | snapshot
2019-07-26 gmungocMerge branch 'features/JAL-3375vcfValidation' into commit | commitdiff | tree | snapshot
2019-07-26 gmungocJAL-1793 only decode specific special characters in... commit | commitdiff | tree | snapshot
2019-07-26 gmungocJAL-3376 capture VCF POS, ID, QUAL, FILTER as feature... features/JAL-3375vcfValidation commit | commitdiff | tree | snapshot
2019-07-26 gmungocJAL-3375 format validate VCF Integer and Float fields commit | commitdiff | tree | snapshot
2019-07-25 gmungocJAL-3375 ignore '.' values for VCF data commit | commitdiff | tree | snapshot
2019-07-16 gmungocMerge branch 'develop' into feature/JAL-3187linkedFeatures commit | commitdiff | tree | snapshot
2019-07-16 gmungocJAL-2987 tolerate null double values when formatting... commit | commitdiff | tree | snapshot
2019-07-10 gmungocMerge branch 'develop' into feature/JAL-3187linkedFeatures commit | commitdiff | tree | snapshot
2019-07-10 Jim ProcterJAL-3289 bamboo properties for ‘BUILD’ getdown channel... commit | commitdiff | tree | snapshot
2019-07-10 Jim ProcterJAL-3289 bamboo properties for ‘BUILD’ getdown channel commit | commitdiff | tree | snapshot
2019-07-08 gmungocJAL-3187 derived peptide variants tweaks and tests commit | commitdiff | tree | snapshot
2019-07-05 gmungocJAL-3187 initial refactoring towards peptide variant... commit | commitdiff | tree | snapshot
2019-07-05 Ben SoaresJAL-1544 fixed a html encoding of '<' (%lt; -> &lt... commit | commitdiff | tree | snapshot
2019-07-05 gmungocJAL-1793 apply URL decoding when saving VCF attribute... commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterJAL-3111 correct JVL appbase for 2.10.5 via getdown commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterMerge branch 'task/JAL-3337-rm-lib-update-sourceDist... commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterJAL-3337 round-and-round the process source files again commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterJAL-3337 more includes and excludes commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterJAL-3337 remove the old lib directory ! task/JAL-3337-rm-lib-update-sourceDist commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterJAL-3337 rejig the source distribution generation to... commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterJAL-3111 replace year in header for help pages and... commit | commitdiff | tree | snapshot
2019-07-04 Ben SoaresJAL-3225 try/catch for non-deprecated/deprecated proper... commit | commitdiff | tree | snapshot
2019-07-04 Ben SoaresJAL-3353 Change to build.gradle to use the file://... commit | commitdiff | tree | snapshot
2019-07-04 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2019-07-04 gmungocJAL-3111 help pages minor corrections commit | commitdiff | tree | snapshot
2019-07-04 Ben SoaresJAL-3348 fixed an internal href in help to allow building commit | commitdiff | tree | snapshot
2019-07-04 Ben SoaresJAL-3337 adjusted building doc as sourceDist uses gradl... commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterMerge branch 'task/JAL-3348_document_cli_memory_setting... commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterJAL-3111 JAL-3348 JVL file documentation commit | commitdiff | tree | snapshot
2019-07-04 Jim ProcterJAL-3348 revised bsoares memory settings documentation... commit | commitdiff | tree | snapshot
2019-07-04 Ben SoaresMerge branch 'develop' into task/JAL-3348_document_cli_... commit | commitdiff | tree | snapshot
2019-07-03 Ben SoaresJAL-3348 memory.html documentation finished for 2.11.0 commit | commitdiff | tree | snapshot
2019-07-03 Ben SoaresJAL-3348 jvmmempc in jvl file now works in linux commit | commitdiff | tree | snapshot
2019-07-03 Ben SoaresJAL-3348 jvmmempc multiple values shouldn't be merged commit | commitdiff | tree | snapshot
2019-07-03 Jim ProcterJAL-3111 tidy up lists/indentation for release notes commit | commitdiff | tree | snapshot
2019-07-03 Jim ProcterJAL-3111 Java 11 only and 'onwards' commit | commitdiff | tree | snapshot
2019-07-03 Jim ProcterJAL-3111 more whatsNew tweaks commit | commitdiff | tree | snapshot
2019-07-03 Jim ProcterMerge branch 'task/JAL-3337_gradle_tasks_sourceDist_and... commit | commitdiff | tree | snapshot
2019-07-03 Jim ProcterJAL-3111 more whats new commit | commitdiff | tree | snapshot
2019-07-03 Ben SoaresJAL-3348 start of new memory setting text commit | commitdiff | tree | snapshot
2019-07-03 Ben SoaresJAL-3348 jvmmempc allowed in jvl file commit | commitdiff | tree | snapshot
2019-07-03 Ben SoaresMerge branch 'develop' into task/JAL-3348_document_cli_... commit | commitdiff | tree | snapshot
2019-07-03 Jim ProcterMerge branch 'documentation/JAL-2843_featureFiltersForm... commit | commitdiff | tree | snapshot
2019-07-03 Ben SoaresJAL-3348 prepping getdown to pass JVM command line... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 updated what’s new… still more to come ! commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 updated privacy statement to remove mention... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 JAL-3150 revised Jalview archive documentation... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 JAL-3348 removed pre 2.11 instructions on... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 JAL-3280 hide the version check preference... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 tidied up preferences dialog documentation commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 fix broken helpTOC link commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterMerge branch 'tasks/JAL-3311_removeVamsasMenu' into... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterMerge branch 'develop' into tasks/JAL-3311_removeVamsasMenu commit | commitdiff | tree | snapshot
2019-07-02 Ben SoaresMerge branch 'develop' into task/JAL-3337_gradle_tasks_... commit | commitdiff | tree | snapshot
2019-07-02 Ben SoaresJAL-3337 Tidied up j8libs in THIRDPARTYLIBS. Replaced... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 release date now 4th July 2019 - codename... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterMerge branch 'documentation/JAL-3111_release_211' into... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 formatting commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 new known defect from JAL-797 commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 release notes for JAL-2789 JAL-2744 JAL-1889... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3111 whats new and JAL-2738 JAL-2743 expanded help... commit | commitdiff | tree | snapshot
2019-07-02 Ben SoaresMerge branch 'develop' into task/JAL-3337_gradle_tasks_... commit | commitdiff | tree | snapshot
2019-07-02 Ben SoaresJAL-3337 Excluding j11modDir from source distribution... commit | commitdiff | tree | snapshot
2019-07-02 Ben SoaresJAL-3337 Updated the j11lib jars (don't need to be... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3337 gradle.properties for publish help as html... commit | commitdiff | tree | snapshot
2019-07-02 Jim ProcterJAL-3337 publish help as html pages with GA tracker... commit | commitdiff | tree | snapshot
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