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Merge branch 'spike/JAL-2040_JAL-2137_phyre2' into features/JAL-2040_JAL-2137_phyre2
[jalview.git] / src /
2017-01-19 Jim ProcterMerge branch 'spike/JAL-2040_JAL-2137_phyre2' into... features/JAL-2040_JAL-2137_phyre2 tree | commitdiff
2016-10-27 tcofoegbuMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-10-27 tcofoegbuJAL-2280 Improvement to enable drag'n'drop association... tree | commitdiff
2016-10-27 gmungocJAL-98 refactor bleachColour() to ColorUtils tree | commitdiff
2016-10-27 gmungocJAL-2287 treat Escape like Cancel in dialog box tree | commitdiff
2016-10-26 gmungocJAL-2287 Cancel option on Close Chimera? dialog tree | commitdiff
2016-10-26 gmungocMerge branch 'bug/JAL-98consensusMemory' into develop tree | commitdiff
2016-10-26 gmungocJAL-2286 modal residue check + commenting tree | commitdiff
2016-10-26 gmungocJAL-98 null reference to globalColourScheme as it has... tree | commitdiff
2016-10-26 gmungocJAL-2286 javadoc, refactor, unit tests for threshold... tree | commitdiff
2016-10-26 tcofoegbuMerge branch 'features/JAL-2284_export-biojsmsa-via... tree | commitdiff
2016-10-26 tcofoegbuJAL-2284 basic support for exporting BioJS MSA viewer... features/JAL-2284_export-biojsmsa-via-cli tree | commitdiff
2016-10-25 gmungocJAL-2286 use constant for fixed colours tree | commitdiff
2016-10-25 gmungocJAL-98 javadoc corrected tree | commitdiff
2016-10-25 gmungocJAL-98 javadoc added tree | commitdiff
2016-10-25 gmungocJAL-98 minor fixes to / tests for annotation derivation tree | commitdiff
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch tree | commitdiff
2016-10-25 tcofoegbuMerge branch 'bug/JAL-2277_html-output-wrapped-mode... tree | commitdiff
2016-10-25 tcofoegbuJAL-2277 Improvement to support html+svg export in... bug/JAL-2277_html-output-wrapped-mode tree | commitdiff
2016-10-25 gmungocJAL-98 field comments updated tree | commitdiff
2016-10-25 gmungocJAL-98 small efficiency fix + commenting tree | commitdiff
2016-10-25 gmungocJAL-98 javadoc / comments updated tree | commitdiff
2016-10-24 Jim ProcterMerge branch 'releases/Release_2_10_0_Branch' tree | commitdiff
2016-10-24 gmungocJAL-98 fixme comment removed - nothing to do tree | commitdiff
2016-10-24 gmungocJAL-98 ResidueCount 100% test coverage (and bug fixes!) tree | commitdiff
2016-10-24 kiramtMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-10-24 kiramtUnit tests for UrlLink bug/JAL-2281JAL-2282 tree | commitdiff
2016-10-24 Jim ProcterMerge branch 'bug/JAL-2272cmdClickGroupEdit' into develop tree | commitdiff
2016-10-24 gmungocJAL-2272 Cmd-drag to group edit sequences on Mac (Ctrl... bug/JAL-2272cmdClickGroupEdit tree | commitdiff
2016-10-24 kiramtFixed dialog box messages in English and Spanish. Adjus... tree | commitdiff
2016-10-24 gmungocMerge branch 'develop' into bug/JAL-98consensusMemory tree | commitdiff
2016-10-24 kiramtCorrect Preferences to check for SEQUENCE_NAME as well... tree | commitdiff
2016-10-24 gmungocJAL-2283 set 'by conservation' correctly when changing... tree | commitdiff
2016-10-24 kiramtCode tidy up. Unit test passes. tree | commitdiff
2016-10-22 kiramtWorking links menu tree | commitdiff
2016-10-21 kiramtFactored URL Link constants out into UrlConstants file. tree | commitdiff
2016-10-17 kiramtMerge remote-tracking branch 'origin/bug/JAL-1552dragnd... tree | commitdiff
2016-10-17 kiramtacceptDrop call added before getTransferable in alignme... bug/JAL-1552dragndroptake2 tree | commitdiff
2016-10-17 tcofoegbuJAL-2262 JAL-2195 Improvement to set PDBId availability... tree | commitdiff
2016-10-17 kiramtRe-attempt to fix JAL-1552 by removing extra calls... tree | commitdiff
2016-10-14 gmungocMerge branch 'releases/Release_2_10_Branch' into task... task/JAL-2196pdbeProperties tree | commitdiff
2016-10-13 gmungocJAL-2253 2 second timeout on ping URL, default 5 minute... feature/JAL-2553ensemblGenomes tree | commitdiff
2016-10-13 gmungocMerge branch 'releases/Release_2_10_Branch' into develop tree | commitdiff
2016-10-13 gmungocJAL-1479 revise warning message to suit all contexts bug/JAL-2044jmolModelBinding tree | commitdiff
2016-10-13 gmungocJAL-2044 increase Jmol file load timeout from 5 to... tree | commitdiff
2016-10-13 gmungocJAL-2044 ensure AAStructureBindingModel.pdbEntry has... tree | commitdiff
2016-10-13 gmungocJAL-2044 include model name in progress bar message... tree | commitdiff
2016-10-11 tcofoegbuMerge branch 'features/JAL-2039_Offer_cached_structuref... tree | commitdiff
2016-10-11 tcofoegbuJAL-2039 improvement to offer cached structure view... features/JAL-2039_Offer_cached_structurefiles_immediately tree | commitdiff
2016-10-11 gmungocMerge branch 'releases/Release_2_10_Branch' into develop tree | commitdiff
2016-10-11 gmungocJAL-2241 check for null jprovider when processing New... tree | commitdiff
2016-10-11 kiramtJAL-1552 added acceptDrop call before getTransferable... bug/JAL-1552dragndropurl tree | commitdiff
2016-10-11 gmungocMerge branch 'releases/Release_2_10_Branch' into develop tree | commitdiff
2016-10-11 gmungocJAL-1479 small tidy of error message when Sifts mapping... tree | commitdiff
2016-10-11 gmungocJAL-2233 reverted changes to Jmol logging levels tree | commitdiff
2016-10-10 tcofoegbuJAL-2262 JAL-2195 bug fix for mapping local structure... tree | commitdiff
2016-10-06 gmungocJAL-2254 map error text in root node of EMBL XML response tree | commitdiff
2016-10-06 gmungocMerge branch 'develop' into bug/JAL-98consensusMemory tree | commitdiff
2016-10-06 gmungocMerge branch 'develop' into task/JAL-2196pdbeProperties tree | commitdiff
2016-10-06 gmungocJAL-2245 checks for null added (in case EMBL fetch... tree | commitdiff
2016-10-06 Jim ProcterJAL-2089 Merge branch releases/Release_2_10_Branch... tree | commitdiff
2016-10-05 Jim ProcterJAL-2036 rebuild menus for each panel before adding... tree | commitdiff
2016-10-05 Jim ProcterJAL-2189 license header tree | commitdiff
2016-10-05 Jim ProcterJAL-2189 apply license tree | commitdiff
2016-10-05 Jim ProcterJAL-2189 source formatting tree | commitdiff
2016-10-05 gmungocMerge branch 'develop' into task/JAL-2196pdbeProperties tree | commitdiff
2016-10-05 Jim ProcterRevert "JAL-2245 Castor mapping and code changes for... tree | commitdiff
2016-10-05 gmungocJAL-1191 revert to using SequenceOntologyLite due to... tree | commitdiff
2016-10-05 gmungocJAL-1191 configure full SO for desktop, SOLite for... tree | commitdiff
2016-10-05 gmungocJAL-2245 defence against NullPointer if no EMBL data... tree | commitdiff
2016-10-05 gmungocJAL-1191 use full SO in desktop application tree | commitdiff
2016-10-05 gmungocJAL-2105 update Ensembl REST version to 4.7 tree | commitdiff
2016-10-05 gmungocJAL-1191 refined warning message tree | commitdiff
2016-10-05 gmungocJAL-1191 added mRNA isA transcript to SequenceOntologyL... tree | commitdiff
2016-10-04 gmungocMerge branch 'bug/JAL-2245enaXmlChange' into develop tree | commitdiff
2016-10-04 gmungocJAL-2245 Castor mapping and code changes for change... bug/JAL-2245enaXmlChange tree | commitdiff
2016-10-04 gmungocJAL-2232 JAL-2154 update dbrefs to newly created datase... tree | commitdiff
2016-10-03 gmungocJAL-2110 javadoc formatting only tree | commitdiff
2016-10-03 gmungocJAL-2110 JAL-1705 handle not found (400) better tree | commitdiff
2016-10-03 gmungocJAL-2110 additional tests for setDatasetSequence, javad... tree | commitdiff
2016-10-03 gmungocJAL-98 throw exception (unhandled) for int overthrow... tree | commitdiff
2016-10-03 gmungocJAL-98 use Profile to store consensus, ResidueCount... tree | commitdiff
2016-10-03 gmungocJAL-98 bespoke fast percentage formatter for consensus... tree | commitdiff
2016-10-03 Jim ProcterJAL-2210 use addDBRef to ensure normalisation (just... tree | commitdiff
2016-10-03 Jim ProcterJAL-2210 need to add both transcript and product, and... tree | commitdiff
2016-10-03 Jim ProcterJAL-2210 JAL-2232 remove version number from ENACDS... tree | commitdiff
2016-10-03 Jim ProcterJAL-2210 hack to remove EMBL from Protein crossrefs... tree | commitdiff
2016-10-03 Jim ProcterJAL-2210 explicit ‘doNotAdd’ list to prevent sequences... tree | commitdiff
2016-10-02 Jim ProcterJAL-2210 remove ENSEMBL from protein DB list: tree | commitdiff
2016-10-02 Jim ProcterJAL-2210 two pass attempt to import retrieved sequences... tree | commitdiff
2016-10-02 Jim ProcterJAL-2210 try to merge all sequences referenced by a... tree | commitdiff
2016-10-02 Jim ProcterJAL-2210 comments tree | commitdiff
2016-10-02 Jim ProcterJAL-2210 discover candidate dataset sequences for an... tree | commitdiff
2016-10-02 Jim ProcterJAL-2079 pass server name when reporting FTS ‘warning... tree | commitdiff
2016-10-01 Jim ProcterMerge branch 'develop' into bug/JAL-2210_ensembl_unipro... tree | commitdiff
2016-10-01 Jim ProcterJAL-2210 factored out code for processing cross-referen... tree | commitdiff
2016-10-01 Jim ProcterJAL-2210 refactor code to remove from a list of dbrefs... tree | commitdiff
2016-09-30 Jim ProcterJAL-2210 some DBRef xref/ref correspondences may add... tree | commitdiff
2016-09-30 Jim ProcterJAL-2210 CrossRef.findInDataset should search for prese... tree | commitdiff
2016-09-30 Jim ProcterJAL-2210 add uniprot+mapping between ENST and ENSP... tree | commitdiff
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