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2008-11-12	jprocter	gracefully translate ambigous nucleotides as 'X'	commit \| commitdiff \| tree
2008-11-12	jprocter	bugfix to safely deal with server exception resulting...	commit \| commitdiff \| tree
2008-11-12	jprocter	added todo regarding import of GFF2 key=value attributes	commit \| commitdiff \| tree
2008-11-12	jprocter	avoid exception if search returns valid object but...	commit \| commitdiff \| tree
2008-11-12	jprocter	new copy constructor and intersect method	commit \| commitdiff \| tree
2008-11-12	jprocter	involvesSequence to check if searchResults intersect...	commit \| commitdiff \| tree
2008-11-12	jprocter	javadoc and new method to get alignment sequence index...	commit \| commitdiff \| tree
2008-11-04	jprocter	bugfix db ref retrieve routine so it removes dead query...	commit \| commitdiff \| tree
2008-11-04	jprocter	implemented embl validation properly	commit \| commitdiff \| tree
2008-11-04	jprocter	implemented embl validation properly	commit \| commitdiff \| tree
2008-11-04	jprocter	links for non-positional features	commit \| commitdiff \| tree
2008-11-04	jprocter	comment about escaping regex properly	commit \| commitdiff \| tree
2008-11-04	jprocter	optional display of database refs and non-positional...	commit \| commitdiff \| tree
2008-11-04	jprocter	optional display of database refs and non-positional...	commit \| commitdiff \| tree
2008-11-04	jprocter	beginning of implementation of new properties for hide...	commit \| commitdiff \| tree
2008-11-04	jprocter	bugfix for transfer of user defined colourscheme from...	commit \| commitdiff \| tree
2008-11-04	jprocter	application specific validIOformat method	commit \| commitdiff \| tree
2008-09-26	jprocter	added .DSA files to list of jar signatures to be removed...	commit \| commitdiff \| tree
2008-09-24	jprocter	fixed sequence associated annotation reading bug where...	commit \| commitdiff \| tree
2008-09-16	jprocter	added bugfix note for 2.4	commit \| commitdiff \| tree
2008-09-16	jprocter	java 1.1 compatibility	commit \| commitdiff \| tree
2008-09-16	jprocter	fix exception raised when JNet concise files with no...	commit \| commitdiff \| tree
2008-09-09	jprocter	links associated with non-positional features do not...	commit \| commitdiff \| tree
2008-09-09	jprocter	show non-positional features with same code as positonal...	commit \| commitdiff \| tree
2008-09-09	jprocter	refactored feature tooltip generation code to static...	commit \| commitdiff \| tree
2008-09-09	jprocter	non-positional features are displayed with additional...	commit \| commitdiff \| tree
2008-09-09	jprocter	tooltip contains non-positional features and popup...	commit \| commitdiff \| tree
2008-09-09	jprocter	make URL links from description string when link is...	commit \| commitdiff \| tree
2008-09-08	jprocter	view settings in view submenu and user preferences...	commit \| commitdiff \| tree
2008-09-08	jprocter	introduced and commented out code for generating URLs...	commit \| commitdiff \| tree
2008-09-04	jprocter	release property includes -b or -t to indicate what...	commit \| commitdiff \| tree
2008-09-04	jprocter	merge from 2_4_Release branch	commit \| commitdiff \| tree
2008-08-27	jprocter	no newline after licence comment	commit \| commitdiff \| tree
2008-08-27	jprocter	added Release_2_4_branch	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
2008-08-26	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
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