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2008-08-28	jprocter	Throw exception for unknown protocols in case of carbon...	commit \| commitdiff \| tree
2008-08-27	jprocter	applied copyright 2008	commit \| commitdiff \| tree
2008-08-27	jprocter	fix vamas homedir link	commit \| commitdiff \| tree
2008-08-27	jprocter	added keystore config properties	commit \| commitdiff \| tree
2008-08-27	jprocter	added Release_2_4_branch	commit \| commitdiff \| tree
2008-08-26	jprocter	update and test release build system	commit \| commitdiff \| tree
2008-08-26	jprocter	2.4 release documentation update menus, service refs...	commit \| commitdiff \| tree
2008-08-26	jprocter	update Jpred3 service referenec	commit \| commitdiff \| tree
2008-08-26	jprocter	allow '\|' to be entered in URL text box and added regex...	commit \| commitdiff \| tree
2008-08-26	jprocter	set title of viewer frame after file has been loaded...	commit \| commitdiff \| tree
2008-08-26	jprocter	future bug fix todo	commit \| commitdiff \| tree
2008-08-26	jprocter	new thread for initting of DBRefFetcher with latest...	commit \| commitdiff \| tree
2008-08-26	jprocter	uses shared singleton from jalview.gui.SequenceFetcher...	commit \| commitdiff \| tree
2008-08-26	jprocter	added singleton access method to retrieve the latest...	commit \| commitdiff \| tree
2008-08-26	jprocter	bugfix todo for the 'edit sequence' command	commit \| commitdiff \| tree
2008-08-26	jprocter	tooltip for fetch db refs and more generic regex for...	commit \| commitdiff \| tree
2008-08-26	jprocter	pdb xrefs added as dbrefs and as PDB file links	commit \| commitdiff \| tree
2008-08-26	jprocter	ensure successive matches to a regex have distinct...	commit \| commitdiff \| tree
2008-08-20	jprocter	Use 0f rather than NaN to specify non-valued annotation...	commit \| commitdiff \| tree
2008-08-20	jprocter	tooltip displays formatted annotation row description...	commit \| commitdiff \| tree
2008-08-19	jprocter	beginning of fix for embl/cds/highlighting IO in https...	commit \| commitdiff \| tree
2008-08-19	jprocter	fix for arrayoutofbounds bug when secondary structure...	commit \| commitdiff \| tree
2008-08-19	jprocter	better check for molecule type when identifying internal...	commit \| commitdiff \| tree
2008-08-19	jprocter	regex links for launching URL from single click on...	commit \| commitdiff \| tree
2008-08-15	jprocter	update text and version checker	commit \| commitdiff \| tree
2008-08-15	jprocter	dialog size on macs	commit \| commitdiff \| tree
2008-08-15	jprocter	check for crossreferences every time the menus are...	commit \| commitdiff \| tree
2008-08-15	jprocter	catch invalid URL link exception properly	commit \| commitdiff \| tree
2008-08-15	jprocter	increase height of dialog	commit \| commitdiff \| tree
2008-08-15	jprocter	allow '\|' in regex for URL links to be recovered from...	commit \| commitdiff \| tree
2008-08-15	jprocter	safer copy constructor	commit \| commitdiff \| tree
2008-08-15	jprocter	xrefs retrieved from Uniprot	commit \| commitdiff \| tree
2008-08-15	jprocter	added castor back onto classpath	commit \| commitdiff \| tree
2008-08-13	jprocter	check for null viewport on dataset recovery	commit \| commitdiff \| tree
2008-08-13	jprocter	ensure input data can be recovered for tree and PCA...	commit \| commitdiff \| tree
2008-08-13	jprocter	do not try to cancel jobs that cannot be cancelled	commit \| commitdiff \| tree
2008-08-12	jprocter	ascii comment	commit \| commitdiff \| tree
2008-08-12	jprocter	mac logo resourcelocation hack	commit \| commitdiff \| tree
2008-08-12	jprocter	fix artefacts (again)	commit \| commitdiff \| tree
2008-08-12	jprocter	corrected target name in documentation	commit \| commitdiff \| tree
2008-08-12	jprocter	URL help update	commit \| commitdiff \| tree
2008-08-12	jprocter	added nojmol parameter to disable check for jmol	commit \| commitdiff \| tree
2008-08-12	jprocter	simpler regex-replace for path	commit \| commitdiff \| tree
2008-08-12	jprocter	fixing paths	commit \| commitdiff \| tree
2008-08-12	jprocter	regex blah	commit \| commitdiff \| tree
2008-08-12	jprocter	trailing slash regexed out	commit \| commitdiff \| tree
2008-08-12	jprocter	path fixing	commit \| commitdiff \| tree
2008-08-12	jprocter	resources are relative to root of jalview install path	commit \| commitdiff \| tree
2008-08-12	jprocter	update to InstallAnywhere 2008 VP1	commit \| commitdiff \| tree
2008-08-11	jprocter	regular expression based URL link generation	commit \| commitdiff \| tree
2008-08-11	jprocter	Ensure 'None' translates into no colour scheme applied	commit \| commitdiff \| tree
2008-08-11	jprocter	Upgraded to IA Standard 2008 VP1	commit \| commitdiff \| tree
2008-08-11	jprocter	Upgraded to InstallAnywhere 2008 Standard ValuePack 1	commit \| commitdiff \| tree
2008-08-10	jprocter	migration to automated build test	commit \| commitdiff \| tree
2008-08-09	jprocter	fix default build path	commit \| commitdiff \| tree
2008-08-09	jprocter	exclude any InstallAnywhere build artefacts	commit \| commitdiff \| tree
2008-08-09	jprocter	installanywhere to a destination location	commit \| commitdiff \| tree
2008-08-07	jprocter	updating installAnywhere autobuild	commit \| commitdiff \| tree
2008-08-07	jprocter	headless build of InstallAnywhere installer	commit \| commitdiff \| tree
2008-08-06	jprocter	generation of additional URLs for DBRefs on a sequence...	commit \| commitdiff \| tree
2008-08-06	jprocter	extra checks for datasetsequence for when getDbRefs...	commit \| commitdiff \| tree
2008-08-06	jprocter	getDBRefs now always returns DBRefArray if it exists...	commit \| commitdiff \| tree
2008-08-05	jprocter	vamsas documentation	commit \| commitdiff \| tree
2008-08-05	jprocter	new vamsas session does not open a dialog box	commit \| commitdiff \| tree
2008-08-05	jprocter	web services and sequence fetcher added to contents	commit \| commitdiff \| tree
2008-08-05	jprocter	added sequence fetcher and sequence features retrieval...	commit \| commitdiff \| tree
2008-08-05	jprocter	updated statement of limitations for interactive annotation...	commit \| commitdiff \| tree
2008-08-05	jprocter	new sequence fetcher documentation	commit \| commitdiff \| tree
2008-08-05	jprocter	ensure das sequence sources are refreshed when das...	commit \| commitdiff \| tree
2008-08-05	jprocter	showbutton default is true	commit \| commitdiff \| tree
2008-08-04	jprocter	stackoverflow fix	commit \| commitdiff \| tree
2008-08-04	jprocter	PFAM retrieval and new applet parameter	commit \| commitdiff \| tree
2008-08-04	jprocter	pfam seed and full alignment retrieval and nicer ordering...	commit \| commitdiff \| tree
2008-08-04	jprocter	added 'showbutton' applet parameter	commit \| commitdiff \| tree
2008-08-01	jprocter	update to feature list (more to come here for 2.4 release)	commit \| commitdiff \| tree
2008-08-01	jprocter	new SequenceFetcher gui and visual delay indication...	commit \| commitdiff \| tree
2008-08-01	jprocter	updated jalview version of dasobert 1.53e client and...	commit \| commitdiff \| tree
2008-08-01	jprocter	todo	commit \| commitdiff \| tree
2008-08-01	jprocter	interface for windows that display progress bars	commit \| commitdiff \| tree
2008-07-31	jprocter	use canonical DbSource name in GUI box, and ensure...	commit \| commitdiff \| tree
2008-07-31	jprocter	refactored method for registering instance of a dbSource...	commit \| commitdiff \| tree
2008-07-31	jprocter	quick fix for the new uniprot name schema - description...	commit \| commitdiff \| tree
2008-07-31	jprocter	added specific retrieval arguments to SequneceFetcher...	commit \| commitdiff \| tree
2008-07-18	jprocter	resolve 1:many mappings for sequence associated annotation...	commit \| commitdiff \| tree
2008-07-18	jprocter	resolve 1:many mappings from feature sequence ID to...	commit \| commitdiff \| tree
2008-07-18	jprocter	allow findSeq to begin after a given sequence in...	commit \| commitdiff \| tree
2008-07-18	jprocter	Sequence label colour stored for each sequence group	commit \| commitdiff \| tree
2008-07-18	jprocter	comment	commit \| commitdiff \| tree
2008-07-18	jprocter	annotation file format updated to take idColour and...	commit \| commitdiff \| tree
2008-07-18	jprocter	Sequence label colour stored for each sequence group	commit \| commitdiff \| tree
2008-07-18	jprocter	User defined colourschemes are automatically generated...	commit \| commitdiff \| tree
2008-07-18	jprocter	prevent exception when no default timeout is specified	commit \| commitdiff \| tree
2008-07-11	jprocter	ensure annotationElements in non-graphical annotation...	commit \| commitdiff \| tree
2008-06-30	jprocter	javadoc and constraint to ensure annotation labels...	commit \| commitdiff \| tree
2008-06-30	jprocter	java 1.1 compatibility	commit \| commitdiff \| tree
2008-06-30	jprocter	timing of 'on load' output before any gui thread operations	commit \| commitdiff \| tree
2008-06-30	jprocter	safer retrieval of groovy scripts from URLs	commit \| commitdiff \| tree
2008-06-30	jprocter	included includeGaps flag in clustalW colour calculation...	commit \| commitdiff \| tree
2008-06-26	jprocter	added URLEncoder.encode to properly escape CGI encoded...	commit \| commitdiff \| tree
2008-06-23	jprocter	local sequence properties are preserved in SeqCigar...	commit \| commitdiff \| tree
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