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JAL-3009 news reader thread should be in background. TODO: patch newsreader so it...
[jalview.git] / src / jalview / datamodel /
2018-06-02 Jim ProcterJAL-3017 parse multiple variant elements for uniprot... tree | commitdiff
2018-05-10 Jim ProcterMerge branch 'bug/JAL-2920_uniprotvariantfeature' into... tree | commitdiff
2018-05-10 Jim ProcterJAL-2920 simplified logic and added corner cases for... tree | commitdiff
2018-05-07 Jim ProcterJAL-2906 apply GPLv3 license source tree | commitdiff
2018-04-23 gmungocJAL-2954 more efficient SearchResults.markColumns tree | commitdiff
2018-03-14 gmungocJAL-2893 include ENSEMBLGENOMES as a 'roundtrip db... tree | commitdiff
2018-03-07 gmungocJAL-2925 handle empty annotation when copying group... tree | commitdiff
2018-02-27 Jim ProcterMerge branch 'feature/JAL-2759' into merge/JAL-2759_2104 tree | commitdiff
2018-02-26 Jim ProcterJAL-2920 parse variation and original elements of the... tree | commitdiff
2018-02-21 Jim ProcterMerge branch 'bug/JAL-2778again' into releases/Release_... tree | commitdiff
2018-02-21 kiramtJAL-2778 Revert back to old synchronisation tree | commitdiff
2018-02-06 kiramtMerge branch 'develop' into feature/JAL-2759 feature/JAL-2759 tree | commitdiff
2018-02-05 Jim ProcterJAL-2780 JAL-2781 - patch and first test for AlignmentI... tree | commitdiff
2018-02-05 kiramtJAL-2759 Fix errant RangeElementsIterator (unit tests... tree | commitdiff
2018-02-05 kiramtJAL-2759 Rename getBoundedStartIterator tree | commitdiff
2018-02-05 kiramtJAL-2759 Changes to StartRegionIterator after review tree | commitdiff
2018-02-05 kiramtJAL-2788 possible adjustments to sequence accesses tree | commitdiff
2018-02-01 kiramtJAL-2759 use right iterator for getVisibleColsIterator tree | commitdiff
2018-01-31 kiramtJAL-2759 Rationalise VisibleColsIterator and HiddenCols... tree | commitdiff
2018-01-31 kiramtJAL-2759 Generalised HiddenColsIterator naming tree | commitdiff
2018-01-31 kiramtJAL-2759 minor refactor to hiding bitsets tree | commitdiff
2018-01-30 kiramtJAL-2759 Add missing hiddenColumns empty check tree | commitdiff
2018-01-30 kiramtJAL-2759 updateForDeletedRegion no longer needed tree | commitdiff
2018-01-30 kiramtJAL-2759 Rationalising hidden cols cursor, and sorting... tree | commitdiff
2018-01-30 kiramtJAL-2759 comment tree | commitdiff
2018-01-30 kiramtJAL-2759 Additional tests and tweaks to numColumns... tree | commitdiff
2018-01-30 kiramtJAL-2759 Keep numColumns up to date tree | commitdiff
2018-01-29 kiramtJAL-2759 Combine findRegionForColumn code in HiddenColu... tree | commitdiff
2018-01-29 kiramtJAL-2759 numColumns reset tree | commitdiff
2018-01-29 kiramtJAL-2759 remove redundant hiddenColumns.clear() tree | commitdiff
2018-01-29 kiramtJAL-2759 Tidy tree | commitdiff
2018-01-29 kiramtJAL-2759 make a new cursor instead of resetting, update... tree | commitdiff
2018-01-29 kiramtJAL-2759 Fix unintended type change tree | commitdiff
2018-01-26 kiramtJAL-2778 try another way to draw sequences with reduced... tree | commitdiff
2018-01-22 kiramtJAL-2579 Moved locateVisibleStartOfSequence to Sequence... tree | commitdiff
2018-01-22 kiramtJAL-2759 Various minor HiddenColumns updates after... tree | commitdiff
2018-01-19 kiramtJAL-2759 Changes to getVisibleSequenceStrings after... tree | commitdiff
2018-01-19 kiramtJAL-2759 Moved propagateInsertions out of HiddenColumns tree | commitdiff
2018-01-19 kiramtJAL-2759 Update to getVisibleStartAndEndIndex after... tree | commitdiff
2018-01-18 kiramtJAL-2759 change subtractVisibleColumns and removal... tree | commitdiff
2018-01-18 kiramtJAL-2759 Updated test tree | commitdiff
2018-01-18 kiramtJAL-2759 unit tests (incomplete) tree | commitdiff
2018-01-16 kiramtJAL-2759 setup hideBitSet over range for hideInsertions tree | commitdiff
2018-01-16 kiramtJAL-2759 Moved alignment annotation code out of HiddenC... tree | commitdiff
2018-01-16 kiramtJAL-2759 Replaced StringBuffer with StringBuilder;... tree | commitdiff
2018-01-15 kiramtJAL-2759 More compact iterator usage; after review tree | commitdiff
2018-01-15 kiramtJAL-2759 First pass instantiate hiddenColumns collectio... tree | commitdiff
2018-01-15 kiramtJAL-2759 getVisContigsIterator returns VisibleContigsIt... tree | commitdiff
2018-01-15 kiramtJAL-2759 Rename hideInsertionsFor to hideList, after... tree | commitdiff
2018-01-15 kiramtJAL-2759 Refactor of hideInsertionsFor after review tree | commitdiff
2018-01-15 kiramtJAL-2759 Simplified HiddenColumns constructor after... tree | commitdiff
2018-01-15 kiramtJAL-2759 Changed VisibleColsCollection constructor... tree | commitdiff
2018-01-15 kiramtJAL-2759 Minor doc and naming changes tree | commitdiff
2018-01-15 kiramtJAL-2759 Updated absoluteToVisibleColumn doc (prev... tree | commitdiff
2018-01-15 kiramtJAL-2759 Rename findColumnPosition and adjustForHiddenC... tree | commitdiff
2018-01-15 kiramtJAL-2759 Renamed BoundedHiddenColsIterator to HiddenCol... tree | commitdiff
2018-01-15 kiramtJAL-2759 Comments and renaming for has(Many)HiddenColum... tree | commitdiff
2018-01-15 kiramtJAL-2759 Tidy up javadoc and naming in HiddenColumnsCur... tree | commitdiff
2018-01-15 kiramtJAL-2759 Update to getHiddenBoundaryRight + unit test... tree | commitdiff
2018-01-15 kiramtJAL-2759 Updates following review tree | commitdiff
2017-11-22 kiramtJAL-2759 code tidy tree | commitdiff
2017-11-22 kiramtJAL-2759 performance improvements to hideColumns tree | commitdiff
2017-11-22 kiramtJAL-2759 performance tweaks tree | commitdiff
2017-11-22 kiramtJAL-2759 HiddenColumns test polishing tree | commitdiff
2017-11-21 kiramtJAL-2759 corrected old getVisibleBlocksIterator calls... tree | commitdiff
2017-11-21 kiramtJAL-2759 Remove getVisibleBlocksIterator call tree | commitdiff
2017-11-21 kiramtMerge branch 'develop' into feature/JAL-2759 tree | commitdiff
2017-11-21 kiramtJAL-2759 unit tests for VisibleContigsIterator tree | commitdiff
2017-11-20 kiramtJAL-2759 cursor option for BoundedStartRegionIterator tree | commitdiff
2017-11-20 kiramtJAL-2759 rationalise visible contigs iteration tree | commitdiff
2017-11-20 kiramtJAL-2759 improvements to speed up synchronisation;... tree | commitdiff
2017-11-17 Jim ProcterJAL-2698 source code licencing tree | commitdiff
2017-11-17 Jim ProcterMerge branch 'doc/JAL-2494_JAL-2828_mergefindAnnotation... tree | commitdiff
2017-11-17 kiramtJAL-2759 Move isVisible to use cursor tree | commitdiff
2017-11-17 kiramtJAL-2759 tidy tree | commitdiff
2017-11-17 kiramtJAL-2759 Update tests tree | commitdiff
2017-11-17 kiramtJAL-2759 Convert reveal to use cursor tree | commitdiff
2017-11-17 kiramtJAL-2759 HiddenColumnsCursor tests tree | commitdiff
2017-11-16 Jim ProcterMerge branch 'bug/JAL-2829deleteCharsWithGaps' into... tree | commitdiff
2017-11-13 gmungocJAL-2176 removed unused Sequence.index tree | commitdiff
2017-11-13 kiramtJAL-2759 convert findColumnPosition to use cursor tree | commitdiff
2017-11-13 kiramtJAL-2759 Converted getHiddenBoundaryLeft/Right to use... tree | commitdiff
2017-11-10 Jim ProcterJAL-2828 allow CalcId to match on String equivalence... doc/JAL-2494_JAL-2828_mergefindAnnotation tree | commitdiff
2017-11-10 Jim ProcterJAL-2828 refactored duplicate code for searching lists... tree | commitdiff
2017-11-10 gmungocJAL-2829 fixes and unit tests bug/JAL-2829deleteCharsWithGaps tree | commitdiff
2017-11-10 gmungocJAL-2562 updated findPosition javadoc to match behaviour tree | commitdiff
2017-11-09 kiramtJAL-2759 make bounds correct for left scrolling with... tree | commitdiff
2017-11-08 kiramtMerge branch 'develop' into feature/JAL-2759 tree | commitdiff
2017-11-06 kiramtJAL-2759 fix getHiddenOffset iterating backwards tree | commitdiff
2017-11-01 kiramtJAL-2778 remove unnecessary code running in repaint tree | commitdiff
2017-10-26 Jim ProcterMerge branch 'feature/JAL-2488finalize' into develop tree | commitdiff
2017-10-23 Jim ProcterMerge branch 'bug/JAL-2682parseId' into develop tree | commitdiff
2017-10-13 kiramtJAL-2759 hiddenColumns null check tree | commitdiff
2017-10-12 kiramtJAL-2759 working first pass cursor tree | commitdiff
2017-10-11 gmungocJAL-2772 check array bounds for sequence access bug/JAL-2772pdbArrayBounds tree | commitdiff
2017-10-11 gmungocMerge branch 'bug/JAL-2742' into develop tree | commitdiff
2017-10-10 kiramtJAL-2759 Rearranged iterators tree | commitdiff
2017-10-09 gmungocJAL-2480 use interface type for sequenceFeatureStore tree | commitdiff
2017-10-09 kiramtJAL-2674 iterator updates tree | commitdiff
2017-10-06 kiramtJAL-2674 Last moves to iterators tree | commitdiff
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