source.jalview.org Git - jalview.git/shortlog

git://source.jalview.org / jalview.git / shortlog

2007-05-04	amwaterhouse	remove system.out	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	added	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	Add dbrefs before zero length features	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	lastCommand check	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	Rename AppJMol to AppJmol - also AppJmol works with...	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	Renamed to AppJmol	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	New example file for version 2.3	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	New example file for version 2.3	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	Splash screen is not added using normal method, prevent...	commit \| commitdiff \| tree \| snapshot
2007-05-04	amwaterhouse	Annotations do not extend when full alignment is adjusted	commit \| commitdiff \| tree \| snapshot
2007-05-03	amwaterhouse	pdb id toUpperCase	commit \| commitdiff \| tree \| snapshot
2007-05-03	amwaterhouse	optimize repaints	commit \| commitdiff \| tree \| snapshot
2007-05-03	amwaterhouse	remove system.out	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	feature locations are retrieved by associated accession...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	feature locations are retrieved by associated accession...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	public debug report log message to gather any cases...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	fixed getIntervals bug to ensure it returns range from...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	documentation and proxy call to util.MapList.getToWord...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	extractScores menu item disabled for release	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	only return non-empty subsequences when getting selecti...	commit \| commitdiff \| tree \| snapshot
2007-05-02	amwaterhouse	Allow expansion of textarea for many sequence input	commit \| commitdiff \| tree \| snapshot
2007-05-02	amwaterhouse	AMSA input set padgaps true	commit \| commitdiff \| tree \| snapshot
2007-05-02	amwaterhouse	convert space to gapchar	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	undo stackempty error fix, refactored do and undo(...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	refactored do and undo() method to take array of alignm...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	copy only the sequence associated alignment annotation...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	subsequence bound checks and constructor for selectivel...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	return flag indicating if annotations were actually...	commit \| commitdiff \| tree \| snapshot
2007-05-02	jprocter	checks for negative start column in restrict	commit \| commitdiff \| tree \| snapshot
2007-05-02	amwaterhouse	Padgaps is false by default	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	setVisible flag sent to EditNameDialog	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	Pad gaps method	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	Make sure annots are alignment width	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	use jalviewLite to addFrame	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	remove system.out	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	set chains available	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	Multiple views/hidden region/undo out of index bug	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	Can specify PDB chain to map sequence to - only used...	commit \| commitdiff \| tree \| snapshot
2007-05-01	jprocter	javadoc	commit \| commitdiff \| tree \| snapshot
2007-05-01	jprocter	removeAlignmentAnnotation only removes annotation objec...	commit \| commitdiff \| tree \| snapshot
2007-05-01	jprocter	sort-by-score works of sequence-annotation, not alignme...	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	Save seqset properties	commit \| commitdiff \| tree \| snapshot
2007-05-01	amwaterhouse	Seqset properties saved	commit \| commitdiff \| tree \| snapshot
2007-05-01	jprocter	2.3 what's new	commit \| commitdiff \| tree \| snapshot
2007-05-01	jprocter	preliminary EMBL and mapping documentation	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	'no sources selected' calls method on feature settings...	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	fixed deadlock	commit \| commitdiff \| tree \| snapshot
2007-04-30	amwaterhouse	setVisible replaces show	commit \| commitdiff \| tree \| snapshot
2007-04-30	amwaterhouse	Version 11.0.2	commit \| commitdiff \| tree \| snapshot
2007-04-30	amwaterhouse	REmoved	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	rebuild sort by scores menu when new annotation is...	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	pad should leave null annotations array null	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	convenient creation of 'score only' annotation.	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	parse alignment properties and add annotation rows...	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	alignment properties and embedded newick strings can...	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	dssp 7-state to three state lookup	commit \| commitdiff \| tree \| snapshot
2007-04-30	jprocter	javadoc	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	remove excessive painting	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	REmove excessive painting	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Repaint after feature added	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Prevent err when editing and overview drawing	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	FeatureRenderer mixups fixed	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Remove system.out AppletPDBViewer.java	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Check pdbid size >0	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Trouble with featureRenderers fixed	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Move repaint in thread	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Put alignmentProperties in scrollpane	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Check feature group is visible for mouse over features	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	remove System.out	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Add param to Jmol path	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	padGaps moved	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Make sure mainContainer and owner are not null	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Must check that featureGroup is visible for mouse over...	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	amendFeatures	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	paintAlignment(true)	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Place new feature on top of existing features	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Make sure sequence is in mouse over alignment	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Amend Features	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	ColourByStructure not ready yet	commit \| commitdiff \| tree \| snapshot
2007-04-27	jprocter	newlines in alignment properties converted to <br>	commit \| commitdiff \| tree \| snapshot
2007-04-27	jprocter	blc header lines inserted as 'comment' alignment property	commit \| commitdiff \| tree \| snapshot
2007-04-27	jprocter	parsers can generate alignment properties	commit \| commitdiff \| tree \| snapshot
2007-04-27	jprocter	getProperties returns nullk for no properties	commit \| commitdiff \| tree \| snapshot
2007-04-27	jprocter	documentation and getProperties method	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	aligned boxes	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	ThresholdIsMin available in applet	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Set black if colour null	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Alignment properties available	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	hide the initial window after selection made	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	one colour flag in annotation export	commit \| commitdiff \| tree \| snapshot
2007-04-27	jprocter	bugfix for deleted annotation undo	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Annotation gradient will use direct colours if no graph...	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Allow threshold to be min/max	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	hide annotation colouring options	commit \| commitdiff \| tree \| snapshot
2007-04-27	amwaterhouse	Dont colour labels	commit \| commitdiff \| tree \| snapshot
2007-04-26	jprocter	added/tested sort by scores menu and added basic extrac...	commit \| commitdiff \| tree \| snapshot
2007-04-26	jprocter	use hasScore method to test presence of score in annota...	commit \| commitdiff \| tree \| snapshot
2007-04-26	jprocter	added 'sort by sequence associated annotation score'	commit \| commitdiff \| tree \| snapshot
2007-04-26	jprocter	bug fixed basic score extraction by regex on descriptio...	commit \| commitdiff \| tree \| snapshot
2007-04-26	jprocter	get annotation by label string	commit \| commitdiff \| tree \| snapshot
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