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[jalview.git] / src / jalview / datamodel / SequenceI.java

2016-10-25	Jim Procter	JAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch	blob \| commitdiff
2016-10-06	Jim Procter	JAL-2089 Merge branch releases/Release_2_10_Branch...	blob \| commitdiff \| diff to current
2016-10-05	Jim Procter	JAL-2189 source formatting	blob \| commitdiff
2016-10-03	gmungoc	JAL-2110 additional tests for setDatasetSequence, javad...	blob \| commitdiff \| diff to current
2016-09-28	Jim Procter	JAL-2210 instrument setDBRefs to call ensurePrimaries	blob \| commitdiff \| diff to current
2016-09-16	gmungoc	JAL-2157 JAL-1803 refactored Sequence.updatePDBIds...	blob \| commitdiff \| diff to current
2016-09-07	Jim Procter	JAL-1803 first pass at updatePDBEntry	blob \| commitdiff \| diff to current
2016-08-24	Jim Procter	JAL-2106 removed setSourceDBRef, refactor getSourceDBRe...	blob \| commitdiff \| diff to current
2016-07-12	Jim Procter	JAL-2110 javadoc	blob \| commitdiff \| diff to current
2016-06-23	Jim Procter	JAL-2110 SequenceI.isProtein method	blob \| commitdiff \| diff to current
2016-05-17	tcofoegbu	JAL-2106 JAL-1926 updated source doc for set/getSourceDBRef	blob \| commitdiff \| diff to current
2016-04-05	Jim Procter	JAL-2046 explicit contract for get/set SequenceFeatures...	blob \| commitdiff \| diff to current
2015-11-05	tcofoegbu	JAL-1942 JAL-1479 refactored SequenceI.getDBRef/Sequenc...	blob \| commitdiff \| diff to current
2015-10-16	Jim Procter	JAL-1925 update source version in license Release_2_9_0b2	blob \| commitdiff \| diff to current
2015-10-15	tcofoegbu	JAL-1479 refactored SequenceI interface - changed getDB...	blob \| commitdiff \| diff to current
2015-10-14	tcofoegbu	JAL-1926 added supporting model changes to enable savin...	blob \| commitdiff \| diff to current
2015-10-08	Jim Procter	JAL-1894 update year/version in copyright	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 source formatting and organise imports	blob \| commitdiff \| diff to current
2015-08-07	tcofoegbu	JAL-1824 updated caching procedure for pdb entries...	blob \| commitdiff \| diff to current
2015-06-12	tcofoegbu	JAL-1641 refactor	blob \| commitdiff \| diff to current
2015-06-05	tcofoegbu	JAL-1760 JAL-1641 Serialisation of Hidden Seqs and...	blob \| commitdiff \| diff to current
2015-06-05	Jim Procter	JAL-653 refactor sequence interface to separate concret...	blob \| commitdiff \| diff to current
2015-05-12	gmungoc	JAL-1712 fixes/tests for Castor binding and 'show flank...	blob \| commitdiff \| diff to current
2015-04-13	gmungoc	JAL-1693 make exon alignment for get-xref splitframe...	blob \| commitdiff \| diff to current
2015-03-26	gmungoc	Merge develop to Release_2_8_3_Branch	blob \| commitdiff \| diff to current
2015-03-06	Jim Procter	JAL-1683 replace year/version strings with tokens in...	blob \| commitdiff \| diff to current
2015-03-06	Jim Procter	Merge commit 'ab43013b7e357b84b4abade0dba949668dfb2a0e...	blob \| commitdiff \| diff to current
2015-02-12	Jim Procter	javadoc	blob \| commitdiff \| diff to current
2015-01-18	Jim Procter	JAL-1628 new method to get a list of insertions in...	blob \| commitdiff \| diff to current
2015-01-18	Jim Procter	JAL-1372 JAL-1114 JAL-1628 tidy sequenceI/sequence	blob \| commitdiff \| diff to current
2014-12-22	Jim Procter	Merge: 497958b 68dcaa7	blob \| commitdiff \| diff to current
2014-12-15	Jim Procter	JAL-1620 version bump and release notes	blob \| commitdiff \| diff to current
2014-11-28	gmungoc	JAL-1610 check reference annotations against alignment...	blob \| commitdiff \| diff to current
2014-11-12	Jim Procter	javadoc	blob \| commitdiff \| diff to current
2014-10-21	Jim Procter	JAL-674 JAL-1551 imports dropped during merge	blob \| commitdiff \| diff to current
2014-10-21	Jim Procter	Merge branch 'features/JAL-1264_showHideAnnotations...	blob \| commitdiff \| diff to current
2014-10-21	Jim Procter	JAL-1551 crlf changes	blob \| commitdiff \| diff to current
2014-10-15	Jim Procter	JAL-1551 crlf changes due to checkout with text=auto	blob \| commitdiff \| diff to current
2014-10-15	Jim Procter	JAL-1551 crlf changes due to checkout with text=auto	blob \| commitdiff \| diff to current
2014-10-10	gmungoc	JAL-1264 added getAlignmentAnnotations(calcId, label)	blob \| commitdiff \| diff to current
2014-10-06	Jim Procter	JAL-654 javadoc createDatasetSequence and transferAnnot...	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 source formatting	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 fix copyright for 2.8.2	blob \| commitdiff \| diff to current
2014-06-05	Jim Procter	JAL-1517 update copyright to version 2.8.2	blob \| commitdiff \| diff to current
2014-06-05	Jim Procter	Merge branch 'docs/2_8_1_Release' into Release_2_8_2_Branch	blob \| commitdiff \| diff to current
2014-05-22	Jim Procter	JAL-1503 update version in GPL header	blob \| commitdiff \| diff to current
2014-02-18	Jim Procter	Merge branch 'JAL-1445' into develop	blob \| commitdiff \| diff to current
2014-01-29	Jim Procter	JAL-1432 updated copyright notices	blob \| commitdiff \| diff to current
2013-10-14	Jim Procter	Merge branch 'develop' into dev_from_2_8_1	blob \| commitdiff \| diff to current
2013-10-11	Jim Procter	JAL-1114 API javadoc	blob \| commitdiff \| diff to current
2012-11-15	jprocter	Merge branch 'develop' into menard	blob \| commitdiff \| diff to current
2012-10-22	jprocter	Jalview 2.8 Source Header	blob \| commitdiff \| diff to current
2012-10-03	jprocter	formatting	blob \| commitdiff \| diff to current
2012-08-31	jprocter	Merge branch 'develop' into menard	blob \| commitdiff \| diff to current
2012-08-28	jprocter	javadoc and note about broken semantics for findIndex	blob \| commitdiff \| diff to current
2012-07-10	Anne Menard	v2	blob \| commitdiff \| diff to current
2012-05-22	jprocter	Merge remote-tracking branch 'origin/Tcoffee_JAL-1065...	blob \| commitdiff \| diff to current
2011-10-10	jprocter	update author list in license for (JAL-826)	blob \| commitdiff \| diff to current
2011-09-27	jprocter	apply version 2.7 copyright	blob \| commitdiff \| diff to current
2010-09-23	jprocter	Jalview 2.6 source licence	blob \| commitdiff \| diff to current
2010-04-30	jprocter	jalview 2.5 release banner	blob \| commitdiff \| diff to current
2009-06-08	jprocter	apply gpl development license	blob \| commitdiff \| diff to current
2008-09-04	jprocter	merge from 2_4_Release branch	blob \| commitdiff \| diff to current
2008-01-22	jprocter	new method to get map of sequence positions correspondi...	blob \| commitdiff \| diff to current
2007-11-30	jprocter	javadoc and transferAnnotation method	blob \| commitdiff \| diff to current
2007-10-02	jprocter	javadoc	blob \| commitdiff \| diff to current
2007-09-29	jprocter	updatePDBEntry method to add any PDBEntry from the...	blob \| commitdiff \| diff to current
2007-08-30	jprocter	create dataset sequence method	blob \| commitdiff \| diff to current
2007-07-31	jprocter	debugging cross references and duplicate sequence db...	blob \| commitdiff \| diff to current
2007-06-17	jprocter	javadoc	blob \| commitdiff \| diff to current
2007-04-26	jprocter	get annotation by label string	blob \| commitdiff \| diff to current
2007-04-23	amwaterhouse	remove alignmentAnnotation added	blob \| commitdiff \| diff to current
2007-04-17	jprocter	copy constructors and AlignmentAnnotation sequenceRef...	blob \| commitdiff \| diff to current
2007-02-07	amwaterhouse	Formatting	blob \| commitdiff \| diff to current
2007-01-23	amwaterhouse	Hidden representatives moved from sequence to viewport	blob \| commitdiff \| diff to current
2007-01-19	jprocter	datasetSequence derive method and some checks	blob \| commitdiff \| diff to current
2006-12-05	amwaterhouse	Sequence is char []	blob \| commitdiff \| diff to current
2006-11-13	amwaterhouse	Sequence colour moved to viewport	blob \| commitdiff \| diff to current
2006-10-30	amwaterhouse	deleteSequenceFeature	blob \| commitdiff \| diff to current
2006-10-24	amwaterhouse	changeCase, removeGaps moved to commands package	blob \| commitdiff \| diff to current
2006-10-06	jprocter	javadoc	blob \| commitdiff \| diff to current
2006-08-21	amwaterhouse	header updated	blob \| commitdiff \| diff to current
2006-08-21	jprocter	remove gaps method from AlignFrame.remove_gaps_actionPe...	blob \| commitdiff \| diff to current
2006-08-14	jprocter	fixed off by one bug in end sequence from getSubSequenc...	blob \| commitdiff \| diff to current
2006-08-09	jprocter	new SequenceI method for making a sub sequence from...	blob \| commitdiff \| diff to current
2006-07-21	amwaterhouse	DBRef is an array, not vector	blob \| commitdiff \| diff to current
2006-05-02	amwaterhouse	Toggle case added to popup menu	blob \| commitdiff \| diff to current
2006-04-28	amwaterhouse	changeCase	blob \| commitdiff \| diff to current
2006-03-16	amwaterhouse	HiddenSequence methods	blob \| commitdiff \| diff to current
2006-02-24	amwaterhouse	Features are now an array, not vector	blob \| commitdiff \| diff to current
2006-02-03	amwaterhouse	has ref to annotation	blob \| commitdiff \| diff to current
2005-12-06	amwaterhouse	after merge	blob \| commitdiff \| diff to current
2005-06-30	amwaterhouse	Formatting changes	blob \| commitdiff \| diff to current
2005-06-08	amwaterhouse	Formatted source	blob \| commitdiff \| diff to current
2005-06-08	amwaterhouse	GPL license added	blob \| commitdiff \| diff to current
2005-04-06	jprocter	New method for helping to quickly map different aligned...	blob \| commitdiff \| diff to current
2005-03-09	amwaterhouse	allows deletion of chars	blob \| commitdiff \| diff to current
2005-02-04	amwaterhouse	SequenceFeature display added	blob \| commitdiff \| diff to current
2004-11-02	amwaterhouse	Jalview Imported Sources start	blob \| commitdiff \| diff to current

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