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2007-04-27	amwaterhouse	remove System.out	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Add param to Jmol path	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	padGaps moved	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Make sure mainContainer and owner are not null	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Must check that featureGroup is visible for mouse over...	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	amendFeatures	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	paintAlignment(true)	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Place new feature on top of existing features	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Make sure sequence is in mouse over alignment	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Amend Features	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	ColourByStructure not ready yet	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	aligned boxes	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	ThresholdIsMin available in applet	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Set black if colour null	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Alignment properties available	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	hide the initial window after selection made	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	one colour flag in annotation export	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Annotation gradient will use direct colours if no graph...	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Allow threshold to be min/max	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	hide annotation colouring options	commit \| commitdiff \| tree
2007-04-27	amwaterhouse	Dont colour labels	commit \| commitdiff \| tree
2007-04-26	amwaterhouse	check for null ss character	commit \| commitdiff \| tree
2007-04-26	amwaterhouse	colourText = false	commit \| commitdiff \| tree
2007-04-26	amwaterhouse	Edit seqs	commit \| commitdiff \| tree
2007-04-26	amwaterhouse	remove should be removeElement	commit \| commitdiff \| tree
2007-04-26	amwaterhouse	Alignment Properties required for annotation file	commit \| commitdiff \| tree
2007-04-25	amwaterhouse	properties + colours	commit \| commitdiff \| tree
2007-04-25	amwaterhouse	Show scores	commit \| commitdiff \| tree
2007-04-25	amwaterhouse	Export annotations with properties	commit \| commitdiff \| tree
2007-04-25	amwaterhouse	View Properties	commit \| commitdiff \| tree
2007-04-25	amwaterhouse	fix recent file type bug	commit \| commitdiff \| tree
2007-04-25	amwaterhouse	alignmentProperties added	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	getColour method added	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	Check for null displayCharacters	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	Dbref fetcher takes sequences, not alignment	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	getColour added to structures	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	Test out new arrangement	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	Get colour from structure added	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	check dispalyChar is not null	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	Check displayChar is not null	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	Colour is null	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	remove seqref annotations	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	remove alignmentAnnotation added	commit \| commitdiff \| tree
2007-04-23	amwaterhouse	Only fetch refs for seelcted sequences	commit \| commitdiff \| tree
2007-04-19	amwaterhouse	REPLACE added to edit command	commit \| commitdiff \| tree
2007-04-19	amwaterhouse	Only setDropTarget if Desktop is not null	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	Validate range for all annotations	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	Redundant code commented out	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	hastext = false	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	dont set seqref null if index incorrect	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	featureGroups not null	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	Pad gaps when annotation editing	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	quality has text false	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	Quality does not have text	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	Alignment of labels and text	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	checks for scrollbar height	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	Disable memory checker for now	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	adjustForAlignment on new seq ref	commit \| commitdiff \| tree
2007-04-18	amwaterhouse	Check values not null in copy constructor	commit \| commitdiff \| tree
2007-04-17	amwaterhouse	Applet remembers PDBEntries, can launch multiple structures...	commit \| commitdiff \| tree
2007-04-17	amwaterhouse	Add system.out for Mcview / Jmol detection	commit \| commitdiff \| tree
2007-04-17	amwaterhouse	Remove system.out	commit \| commitdiff \| tree
2007-04-16	amwaterhouse	drawSequence must be synchronized	commit \| commitdiff \| tree
2007-04-16	amwaterhouse	Too many calls to paintAlignment	commit \| commitdiff \| tree
2007-04-13	amwaterhouse	FeatureRenderer takes alignmentPanel	commit \| commitdiff \| tree
2007-04-13	amwaterhouse	Check alignment has same sequence	commit \| commitdiff \| tree
2007-04-12	amwaterhouse	Number pad keys can be used in cursor mode	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	SetTargetColour before dialog.show	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	Modified to compile applet with Jmol jar present	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	Can add features with no group	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	Adjustment for hidden columns	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	Use same mouse events as scalePanel	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	Amend features/annotations in applet	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	Used several places	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	If hiddenColumns are null, then column is viisble	commit \| commitdiff \| tree
2007-04-11	amwaterhouse	featureAdded not in applet	commit \| commitdiff \| tree
2007-04-05	amwaterhouse	Paste menu item dispalyed on right click. Memory settings...	commit \| commitdiff \| tree
2007-04-05	amwaterhouse	Pasted file doesnt have title and not reloadable	commit \| commitdiff \| tree
2007-04-05	amwaterhouse	call getAllframes on desktop instance	commit \| commitdiff \| tree
2007-04-04	amwaterhouse	newFEatures flag for seq type	commit \| commitdiff \| tree
2007-04-04	amwaterhouse	Use newFeatures flag	commit \| commitdiff \| tree
2007-04-04	amwaterhouse	combobox for overlapping features	commit \| commitdiff \| tree
2007-04-04	amwaterhouse	paintALignment	commit \| commitdiff \| tree
2007-04-04	amwaterhouse	flag for dasCoordSysFound added	commit \| commitdiff \| tree
2007-04-04	amwaterhouse	Throw exception if pdb result size is zero	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	Allow for scroll bar height	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	New seq feature name not added here	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	getAllFeaturesAtRes replace by findFeaturesAtRes	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	addElement	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	destroy destroyed	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	destroy destroyed	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	Destroy alignment moved to finalize	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	Chain might be null	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	Destroy Alignment when closing frame	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	Destroy aligment method added	commit \| commitdiff \| tree
2007-04-02	amwaterhouse	Must allow for scrollbar height	commit \| commitdiff \| tree
2007-03-27	amwaterhouse	Pick atom highlighted	commit \| commitdiff \| tree
2007-03-27	amwaterhouse	Updated PDB loading params	commit \| commitdiff \| tree
2007-03-26	amwaterhouse	Jmol calls user colours	commit \| commitdiff \| tree
2007-03-26	amwaterhouse	Jalview colour schemes added	commit \| commitdiff \| tree
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