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

2011-10-10	jprocter	update author list in license for (JAL-826)	blob \| commitdiff
2011-09-27	jprocter	apply version 2.7 copyright	blob \| commitdiff \| diff to current
2011-02-27	jprocter	first patch for JAL-774 - ensure end is a valid bound...	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
2008-08-06	jprocter	getDBRefs now always returns DBRefArray if it exists...	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
2007-10-24	jprocter	ensure PDB ids are updated on the dataset sequence	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
2007-08-22	jprocter	added failsafe fix for cases where null sequence names...	blob \| commitdiff \| diff to current
2007-07-31	jprocter	debugging cross references and duplicate sequence db...	blob \| commitdiff \| diff to current
2007-07-30	jprocter	javadoc	blob \| commitdiff \| diff to current
2007-06-17	jprocter	correct construction of new dataset sequence when resid...	blob \| commitdiff \| diff to current
2007-05-10	jprocter	bugfix on copy only referenced annotation in copy const...	blob \| commitdiff \| diff to current
2007-05-02	jprocter	subsequence bound checks and constructor for selectivel...	blob \| commitdiff \| diff to current
2007-04-26	jprocter	get annotation by label string	blob \| commitdiff \| diff to current
2007-04-26	amwaterhouse	remove should be removeElement	blob \| commitdiff \| diff to current
2007-04-23	amwaterhouse	remove alignmentAnnotation added	blob \| commitdiff \| diff to current
2007-04-18	jprocter	java 1.1 compliance	blob \| commitdiff \| diff to current
2007-04-17	jprocter	copy constructors and AlignmentAnnotation sequenceRef...	blob \| commitdiff \| diff to current
2007-03-19	jprocter	equals operation used for canonicalisation of DBRefList...	blob \| commitdiff \| diff to current
2007-02-07	amwaterhouse	Formatting	blob \| commitdiff \| diff to current
2007-01-31	amwaterhouse	make new dataset seq if residues deleted	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
2007-01-18	amwaterhouse	Set description on copy	blob \| commitdiff \| diff to current
2006-12-21	amwaterhouse	check on sequence length	blob \| commitdiff \| diff to current
2006-12-05	amwaterhouse	Sequence is char []	blob \| commitdiff \| diff to current
2006-11-20	amwaterhouse	Must copy old dbrefs	blob \| commitdiff \| diff to current
2006-11-13	amwaterhouse	Dont readd identical DBRef	blob \| commitdiff \| diff to current
2006-11-13	amwaterhouse	Sequence colour moved to viewport	blob \| commitdiff \| diff to current
2006-11-08	amwaterhouse	Set description	blob \| commitdiff \| diff to current
2006-10-30	amwaterhouse	deleteSequenceFeature	blob \| commitdiff \| diff to current
2006-10-26	amwaterhouse	No need to reduce length if inserting more gaps at...	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
2006-08-13	jprocter	fixed end-residue bug and subjob panel names bug	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
2006-07-18	jprocter	use of GapChars	blob \| commitdiff \| diff to current
2006-07-13	amwaterhouse	Sequence is private	blob \| commitdiff \| diff to current
2006-07-12	amwaterhouse	sequences are private in SequenceGroup	blob \| commitdiff \| diff to current
2006-06-15	amwaterhouse	Maintain status and position only for uniprot parsing	blob \| commitdiff \| diff to current
2006-06-09	amwaterhouse	Remove getsfarray	blob \| commitdiff \| diff to current
2006-05-10	amwaterhouse	Changes case to end of alignment	blob \| commitdiff \| diff to current
2006-05-02	amwaterhouse	Toggle case added to popup menu	blob \| commitdiff \| diff to current
2006-04-28	amwaterhouse	Make sure end is less than sequence width	blob \| commitdiff \| diff to current
2006-04-28	amwaterhouse	changeCase	blob \| commitdiff \| diff to current
2006-03-24	amwaterhouse	Add check if sequence already exists	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
2005-12-22	amwaterhouse	REGEX CANNOT BE STATIC	blob \| commitdiff \| diff to current
2005-12-06	amwaterhouse	after merge	blob \| commitdiff \| diff to current
2005-09-30	amwaterhouse	Remove redundancy in Eclipse	blob \| commitdiff \| diff to current
2005-07-29	amwaterhouse	if endRes <1, calc the endRes	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
2005-05-23	jprocter	added some assertions and rangechecks for insert/delete...	blob \| commitdiff \| diff to current
2005-05-05	amwaterhouse	pdbfile details not essential to sequence	blob \| commitdiff \| diff to current
2005-05-03	amwaterhouse	1.1 compatible	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
2005-02-11	amwaterhouse	end of seq adjustments	blob \| commitdiff \| diff to current
2005-02-11	amwaterhouse	watch out for end of seq in findposition	blob \| commitdiff \| diff to current
2005-02-10	amwaterhouse	watch end of sequence when asking for (start, end)	blob \| commitdiff \| diff to current
2005-02-04	amwaterhouse	SequenceFeature display added	blob \| commitdiff \| diff to current
2004-12-15	amwaterhouse	isGap method added to utils	blob \| commitdiff \| diff to current
2004-11-18	amwaterhouse	updates	blob \| commitdiff \| diff to current
2004-11-16	amwaterhouse	initial colour of sequence is black	blob \| commitdiff \| diff to current
2004-11-02	amwaterhouse	Jalview Imported Sources start	blob \| commitdiff \| diff to current

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