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JAL-2907 test method renamed to match method name change
[jalview.git] / src /
2018-02-26 gmungocJAL-2907 read/write underscore for annotation at gap... tree | commitdiff
2018-02-20 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch' into... tree | commitdiff
2018-02-13 Jim ProcterJAL-2780 JAL-2781 don’t create a mapping if sequence... tree | commitdiff
2018-02-13 Jim ProcterJAL-2780 JAL-2781 only create a mapping entry or write... tree | commitdiff
2018-02-13 Jim ProcterJAL-2781 JAL-2780 include sequence start number when... tree | commitdiff
2018-02-13 Jim ProcterJAL-2781 refactor ‘trim retrieved sequence’ preference... tree | commitdiff
2018-02-13 Jim ProcterJAL-2781 null local siftsClient variable if exception... tree | commitdiff
2018-02-13 Jim ProcterJAL-2781 refactor StructureSelectionManager.siftsClient... tree | commitdiff
2018-02-13 Jim ProcterJAL-2781 FIXME: value of sourceType parameter always... tree | commitdiff
2018-02-13 Jim ProcterJAL-2781 refactor possibly non-functional ‘extract... tree | commitdiff
2018-02-13 Jim ProcterJAL-2781 tidy up comments on getMapping/computeMapping tree | commitdiff
2018-02-12 Jim ProcterJAL-2780 JAL-2781 ahem - add a semicolon if there isn... tree | commitdiff
2018-02-11 Jim ProcterJAL-2781 use SIFTs mapping rather than maxChain AlignSe... tree | commitdiff
2018-02-11 Jim ProcterJAL-2780 JAL-2781 use PDBe numbering to map between... tree | commitdiff
2018-02-11 Jim ProcterJAL-2781 mark aligned positions via StructureMapping... tree | commitdiff
2018-02-11 Jim ProcterJAL-2780 JAL-2781 include a Mapping object in Structure... tree | commitdiff
2018-02-11 Jim ProcterJAL-2780 JAL-2781 UNASSIGNED positions marked as Intege... tree | commitdiff
2018-02-09 Jim ProcterUse the “PDBe” or “PDB” numbering (starts from 1, corre... tree | commitdiff
2018-02-09 Jim ProcterJAL-2780 JAL-2781 should always ensure SIFTS mappings... tree | commitdiff
2018-02-07 Jim ProcterJAL-2902 catch case where viewer is closed (therefore... tree | commitdiff
2018-02-07 Jim ProcterJAL-2902 thread off dialog close op to avoid deadlock... tree | commitdiff
2018-02-07 gmungocJAL-2808 ensure pattern field re-enabled when needed... tree | commitdiff
2018-02-07 Jim ProcterJAL-2902 - isBusy and hasMapping methods so client... tree | commitdiff
2018-02-07 Jim ProcterJAL-2780 JAL-2781 fix javadoc in line with behaviour... tree | commitdiff
2018-02-07 Jim ProcterJAL-2780 JAL-2781 JAL-2902 refactor ‘OK’ action to... tree | commitdiff
2018-02-07 Jim ProcterJAL-2780 JAL-2781 don’t assume contiguous mapping to... tree | commitdiff
2018-02-05 Jim ProcterJAL-2780 JAL-2781 programmatically select structures... tree | commitdiff
2018-02-05 Jim ProcterJAL-2780 JAL-2871 only look up current table view once tree | commitdiff
2018-02-05 Jim ProcterJAL-2780 JAL-2781 - patch and first test for AlignmentI... tree | commitdiff
2018-02-05 gmungocJAL-2897 more informative description on synonymous... tree | commitdiff
2018-02-05 gmungocMerge branch 'spikes/mungo' into trialMerge tree | commitdiff
2018-02-05 gmungocJAL-2897 more informative description on synonymous... tree | commitdiff
2018-02-02 gmungocJAL-984 merged to spikes-mungo tree | commitdiff
2018-02-02 gmungocMerge branch 'feature/JAL-984splitAdjuster' into featur... tree | commitdiff
2018-02-02 gmungocJAL-984 use cursor for drag regions to adjust annotatio... tree | commitdiff
2018-02-02 gmungocJAL-984 better behaved panel height adjuster tree | commitdiff
2018-01-31 gmungocJAL-2792 added tooltip to menu items in case of truncation tree | commitdiff
2018-01-30 gmungocJAL-1793 update spike build to latest incl stop and... tree | commitdiff
2018-01-30 gmungocJAL-2898 show 'stop_gained' variants on peptide sequences tree | commitdiff
2018-01-30 gmungocJAL-2897 generate peptide variants for synonymous codon... tree | commitdiff
2018-01-30 gmungocJAL-2897 formatting change only prior to functional... tree | commitdiff
2018-01-29 gmungocJAL-2743 recoded EnsemblLookup without lambda expressio... tree | commitdiff
2018-01-26 gmungocMerge branch 'develop' into features/JAL-1793VCF tree | commitdiff
2018-01-18 gmungocJAL-2810 JAL-2886 i18n tree | commitdiff
2018-01-18 gmungocJAL-2679 update query id to actual case of retrieved... tree | commitdiff
2018-01-17 gmungocJAL-2679 case-insensitive comparison of query and retri... tree | commitdiff
2018-01-16 gmungocJAL-2679 use object_type=Transcript for lookup of Paren... tree | commitdiff
2018-01-10 gmungocJAL-1793 update spike branch to latest tree | commitdiff
2018-01-10 gmungocJAL-2791 ignore feature type visibility in getColor() tree | commitdiff
2018-01-09 gmungocJAL-2843 unit tests for Save/Load colours and filters... tree | commitdiff
2018-01-09 gmungocJAL-2808 small tweaks to api / Javadoc tree | commitdiff
2018-01-08 gmungocJAL-2069 fix setting initial value of slider from threshold tree | commitdiff
2017-12-14 gmungocJAL-2843 missed Castor class tree | commitdiff
2017-12-14 gmungocJAL-2843 save/restore colour feature by attribute,... tree | commitdiff
2017-12-14 gmungocJAL-2879 save/restore feature sub-attributes in Jalview... tree | commitdiff
2017-12-14 gmungocJAL-2843 missed Castor class tree | commitdiff
2017-12-14 gmungocJAL-2843 and Castor metadata file for latest changes tree | commitdiff
2017-12-14 gmungocJAL-2843 schema and code changes to save colour by... tree | commitdiff
2017-12-13 gmungocJAL-2843 add isByAttribute to interface for convenience tree | commitdiff
2017-12-11 gmungocJAL-2843 add colour by attribute, and no value colour... tree | commitdiff
2017-12-08 gmungocJAL-2843 read/write feature filters from/to Jalview... tree | commitdiff
2017-12-08 gmungocJAL-2843 refactor / tidy for feature filter input/output tree | commitdiff
2017-12-08 gmungocJAL-2843 methods relocated tree | commitdiff
2017-12-08 gmungocJAL-2843 toStableString, fromString for Jalview feature... tree | commitdiff
2017-12-08 gmungocJAL-2843 FeatureRenderer.getFeatureFilters returns... tree | commitdiff
2017-12-05 gmungocMerge branch 'develop' into features/JAL-1793VCF tree | commitdiff
2017-12-04 gmungocJAL-2808 JAL-2850 update spike build to latest tree | commitdiff
2017-12-04 gmungocMerge branch 'spikes/mungo' into features/JAL-1793VCF tree | commitdiff
2017-12-04 gmungocJAL-2850 JAL-1766 option to load contig sequence refere... tree | commitdiff
2017-12-04 gmungocJAL-2845 locate reverse strand insertion as complement... tree | commitdiff
2017-12-04 gmungocJAL-2835 small refactor to only extract transcript... tree | commitdiff
2017-12-01 gmungocJAL-2835 spike updated to latest (use specific SO term... tree | commitdiff
2017-12-01 gmungocJAL-2835 refactored to extract specific consequence... tree | commitdiff
2017-12-01 gmungocJAL-2792 sort feature attributes for output, not for... tree | commitdiff
2017-12-01 gmungocJAL-2835 additional sub-terms of sequence_variant added tree | commitdiff
2017-11-30 gmungocJAL-2850 improved use of htsjdk api to read contig... tree | commitdiff
2017-11-30 gmungocJAL-1766 additional tests for stub htsjdk wrapper tree | commitdiff
2017-11-30 Jim ProcterJAL-2849 JAL-2863 file format preferences TODO
 tree | commitdiff
2017-11-30 Jim ProcterJAL-2849 fix tree | commitdiff
2017-11-28 Jim ProcterMerge branch 'bug/JAL-2859_uniprottowrongpdbid' into... tree | commitdiff
2017-11-28 Jim ProcterMerge branch 'bug/JAL-2740' into develop tree | commitdiff
2017-11-28 Jim ProcterMerge branch 'bug/JAL-2827' into develop tree | commitdiff
2017-11-28 Jim ProcterMerge branch 'bug/JAL-2842' into develop tree | commitdiff
2017-11-28 gmungocMerge branch 'develop' into features/JAL-1793VCF tree | commitdiff
2017-11-28 gmungocJAL-2850 MapList.isToForwardStrand added tree | commitdiff
2017-11-27 Jim ProcterJAL-2859 disambiguate with PDB ID if no file path bug/JAL-2859_uniprottowrongpdbid tree | commitdiff
2017-11-27 gmungocJAL-2850 VCFLoader refactored to load VCF to contig... tree | commitdiff
2017-11-24 gmungocJAL-2808 update spike to latest tree | commitdiff
2017-11-24 gmungocJAL-2808 refactoring to better handler filter by Score... tree | commitdiff
2017-11-24 gmungocJAL-2808 relocate constants for compiler, add COLUMN_CO... tree | commitdiff
2017-11-24 gmungocJAL-2808 refine FeatureMatcher interface and matcher... tree | commitdiff
2017-11-24 gmungocJAL-2808 don't cache i18n - MessageManager already... tree | commitdiff
2017-11-23 gmungocJAL-2808 update spike to latest (filter range tooltip... tree | commitdiff
2017-11-23 gmungocJAL-2808 refactor KeyedMatcher as FeatureMatcher with... tree | commitdiff
2017-11-23 gmungocJAL-2808 update spike to latest (filter range, Present... tree | commitdiff
2017-11-23 gmungocJAL-2808 removed field filters; sort CSQ data by key tree | commitdiff
2017-11-23 gmungocJAL-2808 added conditions Present, NotPresent as options tree | commitdiff
2017-11-23 kiramtMerge branch 'develop' into bug/JAL-2851 bug/JAL-2851 tree | commitdiff
2017-11-23 kiramtJAL-2851 Fix merge error breaking vertical scrolling tree | commitdiff
2017-11-23 gmungocJAL-2808 refactor conversion of table data to beans... tree | commitdiff
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