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JAL-1834 removed quotes around truncated strings with ellipsis
[jalview.git]
/
src
/
jalview
/
datamodel
/
Alignment.java
2015-07-30
tcofoegbu
JAL-1443 modified exception notifications
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2015-07-21
tcofoegbu
JAL-1443 bugfix to prevent loading of unidentifiable...
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2015-04-13
gmungoc
JAL-1693 make exon alignment for get-xref splitframe...
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2015-03-26
gmungoc
Merge develop to Release_2_8_3_Branch
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2015-03-06
Jim Procter
JAL-1683 replace year/version strings with tokens in...
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diff to current
2015-03-06
Jim Procter
Merge commit 'ab43013b7e357b84b4abade0dba949668dfb2a0e...
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2015-01-09
Jim Procter
Merge branch 'JAL-1372_referenceseq' into feature_29...
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2014-12-22
Jim Procter
Merge: 497958b 68dcaa7
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2014-12-15
Jim Procter
JAL-1620 version bump and release notes
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2014-11-28
gmungoc
JAL-1610 check reference annotations against alignment...
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diff to current
2014-11-17
Jim Procter
formatting
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diff to current
2014-11-17
Jim Procter
JAL-1587 JAL-407 instrument setDataset to add dataset...
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2014-10-10
gmungoc
JAL-1264 reverted (removed added method)
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2014-10-08
gmungoc
Merge branch 'Release_2_8_2_Branch' into
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2014-10-07
gmungoc
JAL-1264 wip
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2014-09-27
darolmar
JAL-1355
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2014-09-23
darolmar
JAL-1355
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2014-06-06
Jim Procter
JAL-1517 source formatting
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2014-06-06
Jim Procter
JAL-1517 fix copyright for 2.8.2
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2014-06-05
Jim Procter
JAL-1517 update copyright to version 2.8.2
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2014-05-22
Jim Procter
JAL-1503 update version in GPL header
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2014-05-02
Jim Procter
Merge branch 'Release_2_8_1_Branch' into JAL-1372_refer...
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2014-05-01
Jim Procter
JAL-1492 JAL-1397 make AnnotatedCollectionI context...
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2014-01-29
Jim Procter
JAL-1432 updated copyright notices
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2013-10-11
Jim Procter
JAL-1114 promote start/end attributes to gettable field...
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2013-08-30
Jim Procter
JAL-1367 promote the existing representative sequence...
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2013-06-23
Jim Procter
JAL-1230 proxy method for synchronising internal Alignm...
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2013-05-31
Jim Procter
JAL-1259 patch to avoid NPE
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2013-05-31
Jim Procter
JAL-1259 patch to avoid NPE
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2012-10-22
jprocter
Jalview 2.8 Source Header
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2012-10-03
jprocter
formatting
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2012-07-03
jprocter
JAL-961 allow calcId to be specified independently...
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2012-06-13
jprocter
javatidy
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2012-06-12
jprocter
JAL-1115 refactor reordering code operating directly...
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2012-06-12
jprocter
JAL-1115 refactor base collection for Alignment from...
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2012-05-30
jprocter
JAL-1114 - refactor methods handling Vectors and Hashta...
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2012-05-23
jprocter
JAL-961 - annotatable datamodel objects can be queried...
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2012-05-22
jprocter
Merge remote-tracking branch 'origin/Tcoffee_JAL-1065...
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2011-10-10
jprocter
update author list in license for (JAL-826)
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2011-10-04
jprocter
Merge remote-tracking branch 'remotes/origin/2_5_1_rna_...
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2011-09-27
jprocter
apply version 2.7 copyright
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2011-08-15
janengelhardt
JAL-891; Sorting of Structure logo implemented; bug...
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2011-08-11
janengelhardt
JAL-885; hasRNAStructure method was introduced to Align...
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2011-04-21
jprocter
allow an alignment annotation row to be removed and...
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2010-11-12
jprocter
patch for JAL-700
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2010-09-23
jprocter
apply jalview code style
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2010-09-23
jprocter
Jalview 2.6 source licence
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2010-04-30
jprocter
jalview 2.5 release banner
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2010-04-29
jprocter
isAligned assertion (bug 0008144)
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2010-04-28
jprocter
group/annotation association housekeeping
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2009-07-24
jprocter
implement new insert annotation row method and ensure...
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2009-06-08
jprocter
apply gpl development license
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2008-12-19
jprocter
left and right justify method
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2008-12-05
jprocter
support for multiple accession retrieval from a databas...
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2008-11-12
jprocter
javadoc and new method to get alignment sequence index...
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2008-09-04
jprocter
merge from 2_4_Release branch
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2008-07-18
jprocter
allow findSeq to begin *after* a given sequence in...
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2007-11-30
jprocter
case invariant matching of seqeunce feature to sequence...
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2007-08-30
jprocter
moved dataset sequence creation onto sequence method
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2007-08-24
jprocter
dataset alignments have a reference count which must...
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2007-07-13
jprocter
mapping bug fixes
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2007-06-17
jprocter
AlignedCodonFrame holds mapping information between...
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2007-05-10
jprocter
fixed array index out of bounds when not removing align...
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2007-05-07
amwaterhouse
tIndex prevented deletion of last annotation
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2007-05-02
jprocter
return flag indicating if annotations were actually...
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2007-05-01
jprocter
removeAlignmentAnnotation only removes annotation objec...
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2007-04-27
jprocter
documentation and getProperties method
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2007-04-25
amwaterhouse
alignmentProperties added
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2007-04-23
amwaterhouse
remove seqref annotations
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2007-04-17
jprocter
copy constructors and AlignmentAnnotation sequenceRef...
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2007-04-02
amwaterhouse
Destroy alignment moved to finalize
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2007-04-02
amwaterhouse
Destroy aligment method added
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2007-02-07
amwaterhouse
Formatting
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2007-01-26
amwaterhouse
Only set the sequence oncecvs diff datamodel/Alignment...
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2007-01-25
amwaterhouse
Annotation adjustment moved to EditCommand
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2007-01-24
amwaterhouse
AdjustAnnotations needs position, number and insert
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2007-01-23
amwaterhouse
Hidden representatives moved from sequence to viewport
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2006-12-21
amwaterhouse
remove unnecessary import
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2006-12-05
amwaterhouse
Sequence is char []
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2006-11-23
amwaterhouse
Dont make groups of hidden sequences
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2006-11-13
amwaterhouse
Sequence colour moved to viewport
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2006-11-08
amwaterhouse
currentSeq and set description in dataset
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2006-11-03
amwaterhouse
Consensus may already have been removed
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2006-10-27
amwaterhouse
New padgaps works out number of gaps to insert, delete
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2006-10-25
amwaterhouse
We can delete sequence 0
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2006-10-24
amwaterhouse
maxIdLength redundant, deleteCols, trimLeft, removeGaps...
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2006-10-12
amwaterhouse
HiddenSequences now array, not hashtable
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2006-10-09
jprocter
fixed getCompactAlignment method to return proper cigar...
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2006-10-06
amwaterhouse
AAFrequency optimized
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2006-08-21
amwaterhouse
header updated
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2006-08-21
jprocter
removeGaps method can record changes in alignment colum...
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2006-08-18
amwaterhouse
dont remove all representative seqs on delete groups
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diff to current
2006-08-18
amwaterhouse
remove all representative seqs on delete groups
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2006-08-15
amwaterhouse
Move features to dataset
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2006-08-14
amwaterhouse
findSequenceMatch returns multiple sequences
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2006-08-09
jprocter
alignment from seqCigars will correctly mark deleted...
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2006-08-04
jprocter
recover original data for tree and pca as alignment...
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2006-07-28
amwaterhouse
1.1 compatible
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2006-07-26
jprocter
Implemented CIGAR representation of an Alignment view...
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2006-07-26
amwaterhouse
seqs[j] replaces current
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git://source.jalview.org / jalview.git / history