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jalview.git
2018-02-12
Jim Procter
JAL-2780 JAL-2781 ahem - add a semicolon if there isn...
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2018-02-12
Jim Procter
JAL-2780 use value of ’UNASSIGNED’ constant in assert...
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2018-02-12
Jim Procter
JAL-2904 replaced assert for (getEnd()-getStart()+1...
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2018-02-11
Jim Procter
JAL-2781 use SIFTs mapping rather than maxChain AlignSe...
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2018-02-11
Jim Procter
JAL-2780 JAL-2781 use PDBe numbering to map between...
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2018-02-11
Jim Procter
JAL-2781 mark aligned positions via StructureMapping...
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2018-02-11
Jim Procter
JAL-2780 JAL-2781 include a Mapping object in Structure...
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2018-02-11
Jim Procter
JAL-2780 JAL-2781 UNASSIGNED positions marked as Intege...
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2018-02-11
Jim Procter
JAL-2781 fix test data for full length annotation
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2018-02-09
gmungoc
JAL-2789 avoid using transcript (with no UTR) as CDS...
bug/JAL-2666
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2018-02-09
gmungoc
JAL-2789 code format changes only (before functional...
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2018-02-09
gmungoc
JAL-2666 fix failure to scroll split alignment of height 1
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2018-02-09
Jim Procter
Use the “PDBe” or “PDB” numbering (starts from 1, corre...
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2018-02-09
Jim Procter
JAL-2780 JAL-2781 should always ensure SIFTS mappings...
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2018-02-08
gmungoc
JAL-2666 basic initial fix for split screen scroll bug
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2018-02-07
Jim Procter
JAL-2780 JAL-2781 run sequentially and ensure windows...
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2018-02-07
Jim Procter
JAL-2780 JAL-2891 clear all windows always beforeTest...
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2018-02-07
Jim Procter
JAL-2902 catch case where viewer is closed (therefore...
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2018-02-07
Jim Procter
JAL-2902 thread off dialog close op to avoid deadlock...
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2018-02-07
Jim Procter
JAL-2780 JAL-2781 first pass at failing test for incorr...
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2018-02-07
Jim Procter
JAL-2780 JAL-2781 JAL-2902 refactored helper method...
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2018-02-07
Jim Procter
JAL-2902 - isBusy and hasMapping methods so client...
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2018-02-07
Jim Procter
JAL-2780 JAL-2781 fix javadoc in line with behaviour...
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2018-02-07
Jim Procter
JAL-2780 JAL-2781 JAL-2902 refactor ‘OK’ action to...
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2018-02-07
Jim Procter
JAL-2780 JAL-2781 don’t assume contiguous mapping to...
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2018-02-06
kiramt
Merge branch 'develop' into feature/JAL-2759
feature/JAL-2759
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2018-02-05
Jim Procter
JAL-2780 JAL-2781 (failing) test comparing location...
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2018-02-05
Jim Procter
JAL-2780 JAL-2781 programmatically select structures...
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2018-02-05
Jim Procter
JAL-2780 JAL-2871 only look up current table view once
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2018-02-05
Jim Procter
JAL-2780 JAL-2781 test AlignmentI.findAnnotations locat...
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2018-02-05
Jim Procter
JAL-2780 JAL-2781 - patch and first test for AlignmentI...
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2018-02-05
kiramt
JAL-2759 Fix errant RangeElementsIterator (unit tests...
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2018-02-05
kiramt
JAL-2759 Rename getBoundedStartIterator
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2018-02-05
kiramt
JAL-2759 Changes to StartRegionIterator after review
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2018-02-05
kiramt
JAL-2788 possible adjustments to sequence accesses
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2018-02-05
kiramt
JAL-2778 Sequence width benchmark
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2018-02-02
gmungoc
JAL-2899 asynchronous Jmol colour updates
bug/JAL-2899
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2018-02-02
gmungoc
JAL-984 use cursor for drag regions to adjust annotatio...
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2018-02-02
gmungoc
JAL-984 better behaved panel height adjuster
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2018-02-01
gmungoc
JAL-2899 update structure and overview on slider drag...
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2018-02-01
kiramt
JAL-2759 Added in JAL-2851 fix
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2018-02-01
kiramt
JAL-2759 use right iterator for getVisibleColsIterator
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2018-01-31
kiramt
JAL-2759 Rationalise VisibleColsIterator and HiddenCols...
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2018-01-31
kiramt
JAL-2759 Generalised HiddenColsIterator naming
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2018-01-31
kiramt
JAL-2759 test renaming
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2018-01-31
kiramt
JAL-2759 minor refactor to hiding bitsets
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2018-01-30
kiramt
JAL-2759 Add missing hiddenColumns empty check
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2018-01-30
kiramt
JAL-2759 updateForDeletedRegion no longer needed
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2018-01-30
kiramt
JAL-2759 Rationalising hidden cols cursor, and sorting...
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2018-01-30
kiramt
JAL-2759 comment
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2018-01-30
kiramt
JAL-2759 Additional tests and tweaks to numColumns...
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2018-01-30
kiramt
JAL-2759 Keep numColumns up to date
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2018-01-29
kiramt
JAL-2759 remove unneeded cast
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2018-01-29
kiramt
Merge branch 'feature/JAL-2759' of https://source.jalvi...
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2018-01-29
kiramt
JAL-2759 Combine findRegionForColumn code in HiddenColu...
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2018-01-29
gmungoc
Merge branch 'feature/JAL-2759' of https://source.jalvi...
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2018-01-29
gmungoc
JAL-1270 testPadGaps() added
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2018-01-29
kiramt
JAL-2759 numColumns reset
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2018-01-29
kiramt
JAL-2759 remove redundant hiddenColumns.clear()
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2018-01-29
kiramt
JAL-2759 Tidy
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2018-01-29
kiramt
JAL-2759 make a new cursor instead of resetting, update...
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2018-01-29
kiramt
JAL-2759 Fix unintended type change
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2018-01-26
Jim Procter
Merge branch 'releases/Release_2_10_3_Branch' into...
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2018-01-26
kiramt
JAL-2778 try another way to draw sequences with reduced...
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2018-01-26
kiramt
JAL-2778 tightened up use of resetAlignmentDims
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2018-01-25
kiramt
JAL-2778 Tidy
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2018-01-25
kiramt
JAL-2778 added JAL-2851 fix to avoid confusion
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2018-01-25
kiramt
JAL-2778 Reinstate id width adjuster
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2018-01-24
Jim Procter
Merge branch 'develop' into releases/Release_2_10_3_Branch
releases/Release_2_10_3_Branch
Release_2_10_3b1
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2018-01-24
Jim Procter
JAL-2858 update release date and rejig what's new message
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2018-01-23
Jim Procter
Merge branch 'develop' into releases/Release_2_10_3_Branch
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2018-01-23
Jim Procter
JAL-2858 fix what's new
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2018-01-23
Jim Procter
Merge branch 'develop' into releases/Release_2_10_3_Branch
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2018-01-23
Jim Procter
JAL-2858 update latest release notes link in TOC
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2018-01-23
Jim Procter
JAL-2859 release notes
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2018-01-23
Jim Procter
JAL-2858 update release notes
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2018-01-22
Jim Procter
Merge branch 'develop' into releases/Release_2_10_3_Branch
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2018-01-22
Jim Procter
JAL-2858 release notes for 2.10.3b1 (including revision...
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2018-01-22
Jim Procter
JAL-2858 bump version number for 2.10.3b1
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2018-01-22
kiramt
JAL-2579 Moved locateVisibleStartOfSequence to Sequence...
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2018-01-22
kiramt
JAL-2759 Various minor HiddenColumns updates after...
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2018-01-19
kiramt
JAL-2759 Changes to getVisibleSequenceStrings after...
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2018-01-19
kiramt
JAL-2759 Moved propagateInsertions out of HiddenColumns
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2018-01-19
kiramt
JAL-2759 Update to getVisibleStartAndEndIndex after...
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2018-01-18
kiramt
JAL-2759 change subtractVisibleColumns and removal...
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2018-01-18
gmungoc
JAL-2810 JAL-2886 i18n
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2018-01-18
gmungoc
JAL-2679 update query id to actual case of retrieved...
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2018-01-18
kiramt
JAL-2759 Updated test
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2018-01-18
kiramt
JAL-2759 unit tests (incomplete)
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2018-01-17
gmungoc
JAL-2679 case-insensitive comparison of query and retri...
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2018-01-16
gmungoc
JAL-2679 use object_type=Transcript for lookup of Paren...
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2018-01-16
kiramt
JAL-2759 setup hideBitSet over range for hideInsertions
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2018-01-16
gmungoc
JAL-2885 uniprot now https, uniprot/ensembl/pfam/xfam...
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2018-01-16
gmungoc
JAL-1270 JAL-2885 clear properties before load
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2018-01-16
kiramt
JAL-2759 Unit test for PopupMenu hideInsertions code
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2018-01-16
kiramt
JAL-2759 Moved alignment annotation code out of HiddenC...
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2018-01-16
kiramt
JAL-2759 Replaced StringBuffer with StringBuilder;...
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2018-01-15
kiramt
JAL-2759 More compact iterator usage; after review
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2018-01-15
kiramt
JAL-2759 First pass instantiate hiddenColumns collectio...
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2018-01-15
kiramt
JAL-2759 getVisContigsIterator returns VisibleContigsIt...
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