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

2006-11-15	amwaterhouse	right align ids	blob \| commitdiff
2006-11-14	amwaterhouse	Paintrefresh alignpanel	blob \| commitdiff \| diff to current
2006-11-13	amwaterhouse	REload from URL	blob \| commitdiff \| diff to current
2006-11-13	amwaterhouse	Text colour adapter	blob \| commitdiff \| diff to current
2006-11-09	amwaterhouse	remove system.out	blob \| commitdiff \| diff to current
2006-11-09	amwaterhouse	smooth font gone, setFileName and close open alignPanel	blob \| commitdiff \| diff to current
2006-11-08	amwaterhouse	Reload alignment	blob \| commitdiff \| diff to current
2006-11-08	amwaterhouse	Reload alignment	blob \| commitdiff \| diff to current
2006-11-06	amwaterhouse	Only recalc consensus for start to end of group	blob \| commitdiff \| diff to current
2006-11-06	amwaterhouse	accelerators, save menu item	blob \| commitdiff \| diff to current
2006-11-03	amwaterhouse	Alignpanel is not new if copied from j2xml	blob \| commitdiff \| diff to current
2006-11-03	amwaterhouse	Use Jalview2XML to copy AlignmentPanel	blob \| commitdiff \| diff to current
2006-11-02	amwaterhouse	selected states set in updateMenusFromViewport	blob \| commitdiff \| diff to current
2006-10-27	amwaterhouse	PaintRefresher can calculate seqs added or removed	blob \| commitdiff \| diff to current
2006-10-26	amwaterhouse	Only adds history item if size>0	blob \| commitdiff \| diff to current
2006-10-26	amwaterhouse	Dont readd the undo	blob \| commitdiff \| diff to current
2006-10-26	amwaterhouse	remove gaps size range	blob \| commitdiff \| diff to current
2006-10-25	amwaterhouse	viewport.hasHiddenColumns updated after undo/redo performed	blob \| commitdiff \| diff to current
2006-10-24	amwaterhouse	HistoryItem replaced by CommandI	blob \| commitdiff \| diff to current
2006-10-18	amwaterhouse	No longer a FeatureListener	blob \| commitdiff \| diff to current
2006-10-12	amwaterhouse	If conservation is null, disable Blosum62 and conservat...	blob \| commitdiff \| diff to current
2006-10-10	amwaterhouse	No need to find index when deleting	blob \| commitdiff \| diff to current
2006-10-10	amwaterhouse	Consensus and conservation updated in threads	blob \| commitdiff \| diff to current
2006-10-09	jprocter	imported Vamsas bindings and alpha vamsas client code...	blob \| commitdiff \| diff to current
2006-10-06	jprocter	Added filter so that input to a JPred job is *solely...	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
2006-08-29	amwaterhouse	jnetfile can be loaded onto alignment	blob \| commitdiff \| diff to current
2006-08-21	amwaterhouse	header updated	blob \| commitdiff \| diff to current
2006-08-21	jprocter	Refactored Jnet and added hidden columns support.	blob \| commitdiff \| diff to current
2006-08-17	jprocter	moved visible sub-alignment extraction and update from...	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	Setselectiongroup null on hide	blob \| commitdiff \| diff to current
2006-08-10	amwaterhouse	Only add 1 feature settings table	blob \| commitdiff \| diff to current
2006-08-10	amwaterhouse	Invert column selection	blob \| commitdiff \| diff to current
2006-08-09	amwaterhouse	Null hidden cols check	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	Remove system.out	blob \| commitdiff \| diff to current
2006-07-27	amwaterhouse	seq size cant be less than 2 for tree	blob \| commitdiff \| diff to current
2006-07-26	amwaterhouse	back to org.biojava	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
2006-07-25	amwaterhouse	Repaint	blob \| commitdiff \| diff to current
2006-07-25	amwaterhouse	jalview.biojava	blob \| commitdiff \| diff to current
2006-07-25	amwaterhouse	FileLoader replaces paste when Dropping files	blob \| commitdiff \| diff to current
2006-07-21	amwaterhouse	getViewAsString can ignore sequenceGroup	blob \| commitdiff \| diff to current
2006-07-21	amwaterhouse	Show hide cols and rows	blob \| commitdiff \| diff to current
2006-07-19	amwaterhouse	Save output use whole alignment	blob \| commitdiff \| diff to current
2006-07-19	amwaterhouse	Copy works with selection area	blob \| commitdiff \| diff to current
2006-07-18	amwaterhouse	Use selection area with hidden columns in calculations	blob \| commitdiff \| diff to current
2006-07-13	amwaterhouse	DAS feature retrieval updated	blob \| commitdiff \| diff to current
2006-07-12	amwaterhouse	sequences are private in SequenceGroup	blob \| commitdiff \| diff to current
2006-07-07	amwaterhouse	changeColour is public	blob \| commitdiff \| diff to current
2006-06-23	amwaterhouse	Parse HTML links from jalview features file	blob \| commitdiff \| diff to current
2006-06-23	amwaterhouse	No need for repaint	blob \| commitdiff \| diff to current
2006-06-22	amwaterhouse	Fetch DBRefs	blob \| commitdiff \| diff to current
2006-06-15	amwaterhouse	Correct citation	blob \| commitdiff \| diff to current
2006-06-09	amwaterhouse	Feature and annotation parsing moved to io	blob \| commitdiff \| diff to current
2006-06-07	amwaterhouse	Wrap alignment added to preferences	blob \| commitdiff \| diff to current
2006-06-07	amwaterhouse	new DasSequenceFetcher	blob \| commitdiff \| diff to current
2006-05-17	amwaterhouse	Restrict annotation panel to 50% window on load	blob \| commitdiff \| diff to current
2006-05-12	amwaterhouse	pass viewport to fileloader, as we need to fireproperty...	blob \| commitdiff \| diff to current
2006-05-11	amwaterhouse	Recently loaded files, urls, append sequences to Alignment	blob \| commitdiff \| diff to current
2006-05-10	amwaterhouse	Copy and paste of annotations with seqrefs	blob \| commitdiff \| diff to current
2006-04-28	amwaterhouse	If autoCalculate selected, recalculate immediately	blob \| commitdiff \| diff to current
2006-04-19	amwaterhouse	Multiple views, alignpanels not being used	blob \| commitdiff \| diff to current
2006-04-19	amwaterhouse	Alignment might not have any annotations	blob \| commitdiff \| diff to current
2006-04-06	amwaterhouse	Hide ref to HiddenRegion	blob \| commitdiff \| diff to current
2006-04-06	amwaterhouse	Must copy feature settings from one frame to another...	blob \| commitdiff \| diff to current
2006-04-05	amwaterhouse	Padgap history	blob \| commitdiff \| diff to current
2006-04-04	amwaterhouse	loadDataFile is public	blob \| commitdiff \| diff to current
2006-04-04	amwaterhouse	Autocalculate consensus	blob \| commitdiff \| diff to current
2006-03-24	amwaterhouse	Load data file added	blob \| commitdiff \| diff to current
2006-03-16	amwaterhouse	historyItem.restore	blob \| commitdiff \| diff to current
2006-03-08	amwaterhouse	IdentifyFile should not be static	blob \| commitdiff \| diff to current
2006-02-24	amwaterhouse	Cannot delete residues	blob \| commitdiff \| diff to current
2006-02-16	amwaterhouse	translate cDNA adjusted	blob \| commitdiff \| diff to current
2006-02-16	amwaterhouse	Read startgroup and endgroup in features file	blob \| commitdiff \| diff to current
2006-02-15	amwaterhouse	Dont use FeatureFetcher if nucleotide	blob \| commitdiff \| diff to current
2006-02-13	amwaterhouse	Parsing features file - dont adjust for alignment position	blob \| commitdiff \| diff to current
2006-02-09	amwaterhouse	New implementation for holding search results	blob \| commitdiff \| diff to current
2006-02-08	amwaterhouse	Copy dataset annotations for paste(this)	blob \| commitdiff \| diff to current
2006-02-03	amwaterhouse	Reading features files readded as ref to FeatureRendere...	blob \| commitdiff \| diff to current
2006-01-30	amwaterhouse	Drop annotations onto alignment	blob \| commitdiff \| diff to current
2006-01-11	jprocter	refactored Alignframe padGaps code to Alignment and...	blob \| commitdiff \| diff to current
2005-12-22	amwaterhouse	Remove import	blob \| commitdiff \| diff to current
2005-12-08	amwaterhouse	If dataset seq exists for paste to existing alignment...	blob \| commitdiff \| diff to current
2005-12-06	amwaterhouse	Add features to dataset	blob \| commitdiff \| diff to current
2005-12-06	amwaterhouse	After merge	blob \| commitdiff \| diff to current
2005-10-03	amwaterhouse	Remove development code	blob \| commitdiff \| diff to current
2005-09-30	amwaterhouse	Remove redundancy in Eclipse	blob \| commitdiff \| diff to current
2005-09-22	amwaterhouse	Create instance of FormatAdapter	blob \| commitdiff \| diff to current
2005-09-22	amwaterhouse	If Mac user hasnt selected file format, give warning	blob \| commitdiff \| diff to current
2005-09-21	amwaterhouse	Sequences must be aligned before PCA	blob \| commitdiff \| diff to current
2005-09-20	amwaterhouse	PCAPanel just requires viewport	blob \| commitdiff \| diff to current
2005-09-19	amwaterhouse	Dont add ServiceListeners if desktop is null	blob \| commitdiff \| diff to current
2005-09-15	amwaterhouse	remove system.out	blob \| commitdiff \| diff to current
2005-09-14	amwaterhouse	Copy and paste uses FASTA format	blob \| commitdiff \| diff to current
2005-09-14	amwaterhouse	PCA is in outofmemory try-catch	blob \| commitdiff \| diff to current
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