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2011-12-14	jprocter	JAL-1013 - rename nucleotide and ensure current calculation...	commit \| commitdiff \| tree
2011-12-13	jprocter	JAL-1013 - toy menu to switch between nucleotide and...	commit \| commitdiff \| tree
2011-12-08	jprocter	(JAL-1013) specify sequence type to ensure PCA calculation...	commit \| commitdiff \| tree
2011-12-08	jprocter	reorder fields to match application	commit \| commitdiff \| tree
2011-12-08	jprocter	(JAL-1013) allow sequence type to be specified enabling...	commit \| commitdiff \| tree
2011-12-08	jprocter	(JAL-1013) generalise binary sequence encoding scheme...	commit \| commitdiff \| tree
2011-12-08	jprocter	(JAL-1013) gap character index for each sequence alphabet	commit \| commitdiff \| tree
2011-12-08	jprocter	JAL-1027 fixed up nucleotide subt matrix so it is symmetric...	commit \| commitdiff \| tree
2011-11-21	jprocter	Merge branch 'JAL-368_dragabovedesktop' into Release_2_7_Branch	commit \| commitdiff \| tree
2011-11-21	jprocter	(JAL-368) ensure window never gets a negative Y coordinate...	commit \| commitdiff \| tree
2011-11-20	jprocter	Merge branch 'patch_JAL-1004' into Release_2_7_Branch	commit \| commitdiff \| tree
2011-11-20	jprocter	(JAL-1004) add mouse listener to internal panel	commit \| commitdiff \| tree
2011-11-09	jprocter	Merge branch 'JAL-986_idwidthprefs' into Release_2_7_Branch	commit \| commitdiff \| tree
2011-11-09	jprocter	(JAL-986) rendering to imageMap counts as rendering...	commit \| commitdiff \| tree
2011-11-09	jprocter	Merge branch 'JAL-986_idwidthprefs' into Release_2_7_Branch	commit \| commitdiff \| tree
2011-11-09	jprocter	(JAL-985,JAL-986) documentation and tooltips	commit \| commitdiff \| tree
2011-11-09	jprocter	(JAL-985,JAL-986) allow different ID margin calculation...	commit \| commitdiff \| tree
2011-11-09	jprocter	(JAL-985,JAL-986) preference widgets for settings	commit \| commitdiff \| tree
2011-11-09	jprocter	(JAL-985,JAL-986) preferences documentation	commit \| commitdiff \| tree
2011-11-09	jprocter	(JAL-986) getter for integer user preference properties	commit \| commitdiff \| tree
2011-11-09	jprocter	(JAL-980) jmol classpath patch	commit \| commitdiff \| tree
2011-11-04	jprocter	Merge branch 'JAL-980_jmol_patch' into Release_2_7_Branch	commit \| commitdiff \| tree
2011-11-04	jprocter	(JAL-980) patch netbeans and installAnywhere builds	commit \| commitdiff \| tree
2011-11-04	jprocter	Merge branch 'JAL-980_jmol_patch' into Release_2_7_Branch	commit \| commitdiff \| tree
2011-11-04	jprocter	(JAL-980) use proper release number for Jmol libs ...	commit \| commitdiff \| tree
2011-11-04	jprocter	(JAL-980,JAL-982) - applet console only allows console...	commit \| commitdiff \| tree
2011-11-04	jprocter	(JAL-980) update binding for refactored Jmol constants...	commit \| commitdiff \| tree
2011-11-04	jprocter	(JAL-980) update Jmol library to 12.2.16452 (built...	commit \| commitdiff \| tree
2011-10-21	jprocter	Merge branch 'Release_2_7_Branch_hotfix_JAL-962' into...	commit \| commitdiff \| tree
2011-10-21	jprocter	(JAL-965) new api methods to allow features to be loaded...	commit \| commitdiff \| tree
2011-10-21	jprocter	(JAL-962) rejig parameter processing order so groups...	commit \| commitdiff \| tree
2011-10-21	jprocter	(JAL-962) allow group visibility to be specified before...	commit \| commitdiff \| tree
2011-10-03	jprocter	redact previous commit - fileassociation tag not allowed...	commit \| commitdiff \| tree
2011-10-03	jprocter	removed unnecessary parameters and changed alignment...	commit \| commitdiff \| tree
2011-10-03	jprocter	compile swingreader component for java 1.5 (JAL-948)	commit \| commitdiff \| tree
2011-09-28	jprocter	jnlps with and without file associations for default...	commit \| commitdiff \| tree
2011-09-28	jprocter	broken link. rearranged opening pg	commit \| commitdiff \| tree
2011-09-27	jprocter	typo	commit \| commitdiff \| tree
2011-09-27	jprocter	switch to git release building	commit \| commitdiff \| tree
2011-09-27	jprocter	patch name, reference and URL for Multi-Harmony : JAL-724	commit \| commitdiff \| tree
2011-09-27	jprocter	ensure server errors return a URL and response document...	commit \| commitdiff \| tree
2011-09-27	jprocter	use jalview properties preference to enable RSBS editor...	commit \| commitdiff \| tree
2011-09-27	jprocter	same overzeaolous logic (JAL-915)	commit \| commitdiff \| tree
2011-09-27	jprocter	start of Release 2.7	commit \| commitdiff \| tree
2011-09-27	jprocter	JAL-944 - replaced stale PFAM links for 2.7 release...	commit \| commitdiff \| tree
2011-09-27	jprocter	backout overzealous logic disabling feature links in...	commit \| commitdiff \| tree
2011-09-27	jprocter	NPE fix	commit \| commitdiff \| tree
2011-09-27	jprocter	apply version 2.7 copyright	commit \| commitdiff \| tree
2011-09-26	jprocter	exclude build artefacts from repository	commit \| commitdiff \| tree
2011-09-26	jprocter	updated documentation table of contents, menus and...	commit \| commitdiff \| tree
2011-09-26	jprocter	documentation for news reader (JAL-943)	commit \| commitdiff \| tree
2011-09-26	jprocter	tweak installer with IA2010 - fixes installerObjects...	commit \| commitdiff \| tree
2011-09-26	jprocter	fix jar dependency in InstallAnywhere	commit \| commitdiff \| tree
2011-09-26	jprocter	tidying classpath and fixing InstallAnywhere build	commit \| commitdiff \| tree
2011-09-26	jprocter	tweaked dialog layout. should consider refactoring	commit \| commitdiff \| tree
2011-09-26	jprocter	add new dependencies for 2.7 release	commit \| commitdiff \| tree
2011-09-26	jprocter	make news window a modal dialog on the jalview desktop...	commit \| commitdiff \| tree
2011-09-26	jprocter	avoid deprecation and ensure dialog close event is...	commit \| commitdiff \| tree
2011-09-25	jprocter	organise imports	commit \| commitdiff \| tree
2011-09-25	jprocter	more focus fixing (JAL-943)	commit \| commitdiff \| tree
2011-09-25	jprocter	fix logic to ensure first check for news is correct...	commit \| commitdiff \| tree
2011-09-23	jprocter	try even harder to get focus - for benefit of windows...	commit \| commitdiff \| tree
2011-09-23	jprocter	ensure blog window gets put to front after dialogs...	commit \| commitdiff \| tree
2011-09-23	jprocter	debugged example file again - old version had view...	commit \| commitdiff \| tree
2011-09-22	jprocter	refactor and remove excess imports (JAL-943)	commit \| commitdiff \| tree
2011-09-22	jprocter	jalview rss reader based on jswingreader (JAL-943)	commit \| commitdiff \| tree
2011-09-20	jprocter	help documentation for Jalview 2.7	commit \| commitdiff \| tree
2011-09-16	jprocter	JAL-747 - made warning message friendlier and more...	commit \| commitdiff \| tree
2011-09-16	jprocter	fix for JAL-895 - new exampleFile_2_7.jar and logic...	commit \| commitdiff \| tree
2011-09-16	jprocter	numerically ataxic comments.	commit \| commitdiff \| tree
2011-09-16	jprocter	JAL-574 added option to enable/disable 'follow selection...	commit \| commitdiff \| tree
2011-09-16	jprocter	JAL-940 - removed legacy service options from preferences...	commit \| commitdiff \| tree
2011-09-16	jprocter	JAL-468 typo and label length in dialog	commit \| commitdiff \| tree
2011-09-16	jprocter	patch for JAL-935 - warning messages raised when alignment...	commit \| commitdiff \| tree
2011-09-16	jprocter	JAL-468 JAL-936 sort alignment by tree and autosort...	commit \| commitdiff \| tree
2011-09-16	jprocter	tweak english	commit \| commitdiff \| tree
2011-09-15	jprocter	documentation for new preferences (JAL-234 and web...	commit \| commitdiff \| tree
2011-09-15	jprocter	documentation for JAL-234	commit \| commitdiff \| tree
2011-09-15	jprocter	JAL-860 fixed grammar for one structure vs many structures...	commit \| commitdiff \| tree
2011-09-15	jprocter	JAL-854 tweaked menu layout so services appear before...	commit \| commitdiff \| tree
2011-09-14	jprocter	typo	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-234 - default button to reset min/max colours and...	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-934 - refactor to use label font functions	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-934 - refactor to use label font functions	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-934 - standard label font functions	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-931 (related) - utility to split an alignment database...	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-931 - groovy test harness code.	commit \| commitdiff \| tree
2011-09-14	jprocter	test data for JAL-701	commit \| commitdiff \| tree
2011-09-14	jprocter	patch for NPE (not clear if NPE is evidence of deeper...	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-766 JAL-733 - new alignment->jmol associations...	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-766 JAL-733 - new alignment->jmol associations...	commit \| commitdiff \| tree
2011-09-14	jprocter	fix for JAL-930	commit \| commitdiff \| tree
2011-09-14	jprocter	JAL-766 JAL-733 - new alignment->jmol associations...	commit \| commitdiff \| tree
2011-09-12	jprocter	JAL-927 ensure api method calls that affect GUI state...	commit \| commitdiff \| tree
2011-09-05	jprocter	note about ensuring callers of loadAlignment(..) save...	commit \| commitdiff \| tree
2011-08-30	jprocter	patch for JAL-731	commit \| commitdiff \| tree
2011-08-30	jprocter	patch for JAL-729 - NPE avoided and cut and paste import...	commit \| commitdiff \| tree
2011-08-30	jprocter	JAL-915 - ensured that exceptions are not raised in...	commit \| commitdiff \| tree
2011-08-30	jprocter	fix for JAL-917 - ensure all sequence strings are made...	commit \| commitdiff \| tree
2011-08-30	jprocter	fix for JAL-917 - ensure all sequence strings are made...	commit \| commitdiff \| tree
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