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2006-07-28	amwaterhouse	If colour hasnt been created, make a new one	commit \| commitdiff \| tree
2006-07-28	amwaterhouse	Add transparency	commit \| commitdiff \| tree
2006-07-28	amwaterhouse	output source in gff file	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Send gapChar to print original Data	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Remove immediate call to repaint when deleting	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	seq size cant be less than 2 for tree	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Sends gapChar to seqData	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	remove unnecessary constructor	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Remove unnecessary imports	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Reset das_registry_url if null or empty	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Dont set pdb file if it doenst exist	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	NOR the <pre> tabs	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Use DBRefSource.PDB	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Save PDB file to disk	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Readline instead of bit by bit	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Cant have col less than 0	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Save ref to pdb file	commit \| commitdiff \| tree
2006-07-27	amwaterhouse	Readded	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	PDB file MUST have an id	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	not used	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	Load and save PDB files	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	Add file ref for pdb files	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	Switch to new srs url	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	seqs[j] replaces current	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	moved to org.biojava	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	back to org.biojava	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	Back to org.biojava	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	Column hide/show updated	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	Calculate overlap hidden regions	commit \| commitdiff \| tree
2006-07-26	amwaterhouse	Remove left, right, empty cols work on hidden reps	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	ColumnSelection moved to datamodel	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	activeRow is -1	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Odd edit bug with represented seqs fixed	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Dont add pdb format here	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	1.1 compatible	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Moved to datamodel	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Output menus added	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Repaint	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Dont make new image unless resize	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Reorder popupmenu	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Renamed files not to conflict with BIOJAVA	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	jalview.biojava	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	x < endres-startres	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	x < endres-startres	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Add dbrefs to mouseover	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Must be 1.1 compliant	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Remove associate menu	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	FileLoader replaces paste when Dropping files	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Associate pdb files	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	pdb fetchDataAsFile	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	PDB format added	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	pdb stuff moved to popupmenu	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Can have local file	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	If seq has a dataset, dont clear it	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Extends AlignFile, dataset has PDBEntry added	commit \| commitdiff \| tree
2006-07-25	amwaterhouse	Can load PDB file from disk	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	correct icon draw bug	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Corrected hidden row feature render bug	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Put DBRefFether in a new thread	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Remove start end for now??	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Add pdb ref	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	getViewAsString can ignore sequenceGroup	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	this.seqs = seqs	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	hidden seqs added	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	dbrefs added	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	show hide stuff moved from columnSelection	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Saves hidden seqs and DBRefs	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	av.showHiddenMarkers check	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Show hide cols and rows	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Hide Selected Cols	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	DBRefs now array	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	getFullAlignment	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Remove note	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	DBRef is an array, not vector	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	DBRefs and HiddenRegions saved	commit \| commitdiff \| tree
2006-07-21	amwaterhouse	Load tree from file constructor fixed	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Make new seq[] when modifying hidden bits	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Remove b keystroke	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	showTranslation is not a checkbox	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Merge new frame buttons added	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Output to text window added	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Correct highlighted res height	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Save output use whole alignment	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Original tree data output in PFAM format	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Count uniprot refs	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Highlight hidden columns after revealing	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	datasetSeq bug	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Check for all gapped seqs	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Use Selection group to define sequence range to fetch...	commit \| commitdiff \| tree
2006-07-19	amwaterhouse	Copy works with selection area	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	Modified for hidden region/group calculation	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	Use selection area with hidden columns in calculations	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	omitHiddenColumns	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	Button to view original data	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	Takes strings, not seqs	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	getSelectionAsNewSequence added	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	Takes a string, not sequence	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	Works on strings, not seqs	commit \| commitdiff \| tree
2006-07-18	amwaterhouse	Takes string[] instead of seq[]	commit \| commitdiff \| tree
2006-07-17	amwaterhouse	Towards an auto dbref fetcher	commit \| commitdiff \| tree
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