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git://source.jalview.org / jalview.git / history

[jalview.git] / src / jalview / gui / AlignViewport.java

2011-09-27	jprocter	apply version 2.7 copyright	blob \| commitdiff
2011-07-09	jprocter	refactored from PopupMenu (for JAL-860)	blob \| commitdiff \| diff to current
2011-05-17	jprocter	refactor to allow distinct StructureSelectionManager...	blob \| commitdiff \| diff to current
2011-02-18	jprocter	JAL-574	blob \| commitdiff \| diff to current
2011-02-04	jprocter	javadoc	blob \| commitdiff \| diff to current
2011-01-18	jprocter	refactored VamsasListener to allow the source of the...	blob \| commitdiff \| diff to current
2010-12-09	jprocter	refactored and added methods for getting richer Alignme...	blob \| commitdiff \| diff to current
2010-11-12	jprocter	patch for JAL-699 so conservation/consensus threads...	blob \| commitdiff \| diff to current
2010-09-23	jprocter	apply jalview code style	blob \| commitdiff \| diff to current
2010-09-23	jprocter	Jalview 2.6 source licence	blob \| commitdiff \| diff to current
2010-08-20	jprocter	avoid race condition by setting sequence logo flag...	blob \| commitdiff \| diff to current
2010-06-11	jprocter	patched for JAL-531 - only display full symbol distribu...	blob \| commitdiff \| diff to current
2010-06-08	jprocter	followSelections flag now set via user preferences...	blob \| commitdiff \| diff to current
2010-04-30	jprocter	jalview 2.5 release banner	blob \| commitdiff \| diff to current
2010-04-29	jprocter	new selection manipulation method	blob \| commitdiff \| diff to current
2010-04-14	jprocter	profile visualizations are now logos	blob \| commitdiff \| diff to current
2010-04-05	jprocter	javadoc	blob \| commitdiff \| diff to current
2010-03-30	jprocter	group autoannotation and consensus display settings	blob \| commitdiff \| diff to current
2009-10-14	jprocter	quick fix for nullpointer in column selection when...	blob \| commitdiff \| diff to current
2009-08-21	jprocter	viewport setting for displaying sequence logos	blob \| commitdiff \| diff to current
2009-07-24	jprocter	refactored conservation thread, added showgroupannotati...	blob \| commitdiff \| diff to current
2009-06-08	jprocter	apply gpl development license	blob \| commitdiff \| diff to current
2009-03-17	jprocter	sortbytree view setting and action added - setting...	blob \| commitdiff \| diff to current
2009-02-24	jprocter	bugfix for occasional nullpointer exceptions when selec...	blob \| commitdiff \| diff to current
2009-02-06	jprocter	showUnconserved view and group setting	blob \| commitdiff \| diff to current
2009-01-09	jprocter	hack to completely disable calculation of consensus...	blob \| commitdiff \| diff to current
2008-12-19	jprocter	new sort by length method, justify edit menu entries...	blob \| commitdiff \| diff to current
2008-11-12	jprocter	selection sending and receiving, autoscrolling to highl...	blob \| commitdiff \| diff to current
2008-09-08	jprocter	view settings in view submenu and user preferences...	blob \| commitdiff \| diff to current
2008-09-04	jprocter	merge from 2_4_Release branch	blob \| commitdiff \| diff to current
2008-07-18	jprocter	Sequence label colour stored for each sequence group	blob \| commitdiff \| diff to current
2008-04-21	jprocter	added centre annotation labels menu entry (and commente...	blob \| commitdiff \| diff to current
2007-10-31	jprocter	nullpointer bug fix on consensus thread	blob \| commitdiff \| diff to current
2007-10-04	jprocter	refactored invertColumnSelection as an object method	blob \| commitdiff \| diff to current
2007-09-25	jprocter	primitive methods for getting current undo/redo state...	blob \| commitdiff \| diff to current
2007-06-17	jprocter	enable mouseover between DNA coding regions and transla...	blob \| commitdiff \| diff to current
2007-05-03	amwaterhouse	optimize repaints	blob \| commitdiff \| diff to current
2007-05-02	jprocter	copy only the sequence associated alignment annotation...	blob \| commitdiff \| diff to current
2007-04-23	jprocter	distinct methods for getting references to selected...	blob \| commitdiff \| diff to current
2007-04-18	amwaterhouse	hastext = false	blob \| commitdiff \| diff to current
2007-04-18	amwaterhouse	Quality does not have text	blob \| commitdiff \| diff to current
2007-03-19	jprocter	convenience method to get visible selected region.	blob \| commitdiff \| diff to current
2007-02-27	amwaterhouse	Use paintAlignment	blob \| commitdiff \| diff to current
2007-02-07	amwaterhouse	Formatting	blob \| commitdiff \| diff to current
2007-01-29	amwaterhouse	ID_ITALICS option in preferences	blob \| commitdiff \| diff to current
2007-01-24	amwaterhouse	Conservation etc have autoCalculated flag set true	blob \| commitdiff \| diff to current
2007-01-23	amwaterhouse	Hidden representatives moved from sequence to viewport	blob \| commitdiff \| diff to current
2006-12-05	amwaterhouse	Sequence is char []	blob \| commitdiff \| diff to current
2006-11-24	amwaterhouse	Invert col sel with hidden cols bug fixed	blob \| commitdiff \| diff to current
2006-11-21	amwaterhouse	RightAlign ids from prefs	blob \| commitdiff \| diff to current
2006-11-15	amwaterhouse	right align ids	blob \| commitdiff \| diff to current
2006-11-13	amwaterhouse	sequence colours and text colours added	blob \| commitdiff \| diff to current
2006-11-07	amwaterhouse	Tidy up group size after alignmentChanged	blob \| commitdiff \| diff to current
2006-11-02	amwaterhouse	History is per viewport	blob \| commitdiff \| diff to current
2006-10-30	amwaterhouse	conservation lock	blob \| commitdiff \| diff to current
2006-10-27	amwaterhouse	Remove consensus annotation if out of memory	blob \| commitdiff \| diff to current
2006-10-27	amwaterhouse	updatingConsensus, updatingConservation is static ...	blob \| commitdiff \| diff to current
2006-10-27	amwaterhouse	Reset colour schemes and alignmentChanged moved to...	blob \| commitdiff \| diff to current
2006-10-26	amwaterhouse	showConservation, quality, identity not used	blob \| commitdiff \| diff to current
2006-10-25	amwaterhouse	Return if negative width, ie alignment deleted	blob \| commitdiff \| diff to current
2006-10-18	amwaterhouse	set conserve and quality null if outofmemory	blob \| commitdiff \| diff to current
2006-10-12	amwaterhouse	showQuality may be updated during archive file load	blob \| commitdiff \| diff to current
2006-10-10	amwaterhouse	Calculate alWidth earlier	blob \| commitdiff \| diff to current
2006-10-10	amwaterhouse	Must repaint whole alignPanel	blob \| commitdiff \| diff to current
2006-10-10	amwaterhouse	Consensus and conservation updated in threads	blob \| commitdiff \| diff to current
2006-10-09	jprocter	set firstColumn property for an alignmentView object.	blob \| commitdiff \| diff to current
2006-10-06	amwaterhouse	AAFrequency optimized	blob \| commitdiff \| diff to current
2006-10-05	amwaterhouse	Multiple Views	blob \| commitdiff \| diff to current
2006-09-27	jprocter	fixed tree building exception when one residue or a...	blob \| commitdiff \| diff to current
2006-09-12	amwaterhouse	hideSequence hide all before recalc consensus	blob \| commitdiff \| diff to current
2006-09-07	jprocter	added copy consensus sequence to consensus annotation...	blob \| commitdiff \| diff to current
2006-08-21	amwaterhouse	header updated	blob \| commitdiff \| diff to current
2006-08-17	amwaterhouse	Hold onto selected region when hiding all columns only	blob \| commitdiff \| diff to current
2006-08-17	amwaterhouse	Dont set group null hideCOls	blob \| commitdiff \| diff to current
2006-08-16	amwaterhouse	Fire alignment changed if seqs hidden / revealed	blob \| commitdiff \| diff to current
2006-08-15	amwaterhouse	Select revealed seqs	blob \| commitdiff \| diff to current
2006-08-10	amwaterhouse	Invert column selection	blob \| commitdiff \| diff to current
2006-08-04	jprocter	recover original data for tree and pca as alignment...	blob \| commitdiff \| diff to current
2006-07-28	amwaterhouse	getIndex replaced with findSeq in seqPanel	blob \| commitdiff \| diff to current
2006-07-26	jprocter	Implemented CIGAR representation of an Alignment view...	blob \| commitdiff \| diff to current
2006-07-26	amwaterhouse	Column hide/show updated	blob \| commitdiff \| diff to current
2006-07-25	amwaterhouse	ColumnSelection moved to datamodel	blob \| commitdiff \| diff to current
2006-07-21	amwaterhouse	getViewAsString can ignore sequenceGroup	blob \| commitdiff \| diff to current
2006-07-21	amwaterhouse	show hide stuff moved from columnSelection	blob \| commitdiff \| diff to current
2006-07-18	amwaterhouse	Use selection area with hidden columns in calculations	blob \| commitdiff \| diff to current
2006-07-12	amwaterhouse	sequences are private in SequenceGroup	blob \| commitdiff \| diff to current
2006-04-28	amwaterhouse	validCharWidth moved to viewport	blob \| commitdiff \| diff to current
2006-04-13	amwaterhouse	showInternalMessage jdk1.5 bug	blob \| commitdiff \| diff to current
2006-04-07	amwaterhouse	padGaps set in preferences	blob \| commitdiff \| diff to current
2006-04-07	amwaterhouse	Autocalculate consensus set in preferences	blob \| commitdiff \| diff to current
2006-04-04	amwaterhouse	Autocalculate consensus	blob \| commitdiff \| diff to current
2006-03-24	amwaterhouse	CursoMode added	blob \| commitdiff \| diff to current
2006-03-16	amwaterhouse	HideSequences	blob \| commitdiff \| diff to current
2006-02-24	amwaterhouse	Features added	blob \| commitdiff \| diff to current
2006-01-30	amwaterhouse	Anti alias flag	blob \| commitdiff \| diff to current
2005-12-22	amwaterhouse	Annotations.Graph can be bargraph, linegraph	blob \| commitdiff \| diff to current
2005-12-06	amwaterhouse	After merge	blob \| commitdiff \| diff to current
2005-09-22	amwaterhouse	Dont calculate conservation for nucleotides	blob \| commitdiff \| diff to current
2005-09-22	amwaterhouse	Wrap alignment with annotations	blob \| commitdiff \| diff to current
2005-09-15	amwaterhouse	OptionPane warning for out of memory	blob \| commitdiff \| diff to current
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