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[jalview.git] / src / jalview / bin / Jalview.java

2015-07-13	tcofoegbu	JAL-1788 added help documentation for biojson	blob \| commitdiff
2015-07-09	tcofoegbu	JAL-1769 added test for commandline input operations	blob \| commitdiff \| diff to current
2015-07-08	gmungoc	JAL-1759 merge from develop	blob \| commitdiff \| diff to current
2015-07-06	tcofoegbu	JAL-1769 fixed headless execution mode and created...	blob \| commitdiff \| diff to current
2015-07-02	tcofoegbu	JAL-1443 data validation for empty content before loadi...	blob \| commitdiff \| diff to current
2015-06-05	tcofoegbu	JAL-1760 JAL-1641 Serialisation of Hidden Seqs and...	blob \| commitdiff \| diff to current
2015-05-21	tcofoegbu	JAL-1740 implemented auto-update of BioJsMSA, introduce... features/JAL-1740_BioJsAutoUpdater	blob \| commitdiff \| diff to current
2015-03-26	gmungoc	JAL-1688 compiler warnings removed	blob \| commitdiff \| diff to current
2015-03-06	Jim Procter	JAL-1683 replace year/version strings with tokens in...	blob \| commitdiff \| diff to current
2015-03-06	Jim Procter	Merge commit 'ab43013b7e357b84b4abade0dba949668dfb2a0e...	blob \| commitdiff \| diff to current
2015-02-05	Charles Ofoegbu	merge commit	blob \| commitdiff \| diff to current
2015-02-04	Charles Ofoegbu	JAL-1643 Modified JalviewFileChooser to have a more...	blob \| commitdiff \| diff to current
2014-12-22	Jim Procter	Merge: 497958b 68dcaa7	blob \| commitdiff \| diff to current
2014-12-15	Jim Procter	JAL-1620 version bump and release notes	blob \| commitdiff \| diff to current
2014-12-08	Charles Ofoegbu	Added annotation export configuration for Html export...	blob \| commitdiff \| diff to current
2014-12-05	Charles Ofoegbu	Merge branch 'features/JAL-1605_html-svg-export' into...	blob \| commitdiff \| diff to current
2014-12-05	Charles Ofoegbu	JAL-1605 added command line support for html export...	blob \| commitdiff \| diff to current
2014-12-05	gmungoc	JAL-1614 flag 'protein' removed	blob \| commitdiff \| diff to current
2014-12-05	gmungoc	JAL-1614 flag 'protein' removed	blob \| commitdiff \| diff to current
2014-11-28	Jim Procter	JAL-1611 revise log level to reduce verbosity	blob \| commitdiff \| diff to current
2014-11-19	gmungoc	JAL-1342 new command-line parameter -jabaws <URL>	blob \| commitdiff \| diff to current
2014-11-17	Charles Ofoegbu	comand line support for svg generation	blob \| commitdiff \| diff to current
2014-11-17	Charles Ofoegbu	comand line support for svg generation	blob \| commitdiff \| diff to current
2014-09-23	darolmar	JAL-1355	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 source formatting	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 fix copyright for 2.8.2	blob \| commitdiff \| diff to current
2014-06-05	Jim Procter	JAL-1517 update copyright to version 2.8.2	blob \| commitdiff \| diff to current
2014-06-05	Jim Procter	Merge branch 'docs/2_8_1_Release' into Release_2_8_2_Branch	blob \| commitdiff \| diff to current
2014-05-22	Jim Procter	JAL-1503 update version in GPL header	blob \| commitdiff \| diff to current
2014-02-18	Jim Procter	Merge branch 'JAL-1445' into develop	blob \| commitdiff \| diff to current
2014-01-29	Jim Procter	JAL-1432 updated copyright notices	blob \| commitdiff \| diff to current
2013-06-13	Jim Procter	Merge branch 'develop' into develop_m2_8_1_2	blob \| commitdiff \| diff to current
2013-06-13	Jim Procter	Merge branch 'JAL-1314_headlessFlag' into develop	blob \| commitdiff \| diff to current
2013-06-13	Jim Procter	JAL-1314 allow 'nogui' and 'headless' as synonyms for...	blob \| commitdiff \| diff to current
2012-12-07	jprocter	menu for choosing between 'protein' and 'RNA' mode...	blob \| commitdiff \| diff to current
2012-11-15	jprocter	Merge branch 'develop' into menard	blob \| commitdiff \| diff to current
2012-11-08	jprocter	tidy imports	blob \| commitdiff \| diff to current
2012-10-22	jprocter	Jalview 2.8 Source Header	blob \| commitdiff \| diff to current
2012-10-04	jprocter	JAL-1188 - set the user agent to Jalview Desktop/$...	blob \| commitdiff \| diff to current
2012-10-01	jprocter	JAL-1183 showNews adds news discovery and display threa...	blob \| commitdiff \| diff to current
2012-10-01	jprocter	JAL-1183 use dialog queue for usage statistics prompt	blob \| commitdiff \| diff to current
2012-08-24	jprocter	Merge branch 'develop' into menard	blob \| commitdiff \| diff to current
2012-08-24	jprocter	JAL-1087 skip processing any of the other command line...	blob \| commitdiff \| diff to current
2012-08-14	Anne Menard	last version stay many bugs ..	blob \| commitdiff \| diff to current
2011-10-10	jprocter	update author list in license for (JAL-826)	blob \| commitdiff \| diff to current
2011-09-27	jprocter	apply version 2.7 copyright	blob \| commitdiff \| diff to current
2011-09-16	jprocter	fix for JAL-895 - new exampleFile_2_7.jar and logic...	blob \| commitdiff \| diff to current
2011-08-17	jprocter	JAL-898 - ensure we only remove a clargs progress bar...	blob \| commitdiff \| diff to current
2011-08-05	jprocter	fetch groovy script from URL (JAL-899) and show progres...	blob \| commitdiff \| diff to current
2011-07-28	jprocter	refer to local default setting for proxy when connecting to	blob \| commitdiff \| diff to current
2011-04-08	jprocter	allow groovy scripts to be run when in headless mode...	blob \| commitdiff \| diff to current
2011-04-07	jprocter	allow groovy scripts to be run when in headless mode...	blob \| commitdiff \| diff to current
2011-04-07	jprocter	allow groovy scripts to be run when in headless mode...	blob \| commitdiff \| diff to current
2011-01-07	jprocter	refactored dropFile allowing known information to be...	blob \| commitdiff \| diff to current
2010-11-14	jprocter	refactored to decouple dependencies due to FileParse...	blob \| commitdiff \| diff to current
2010-11-14	jprocter	refactored protocol check to jalview.io.FileParse	blob \| commitdiff \| diff to current
2010-09-23	jprocter	apply jalview code style	blob \| commitdiff \| diff to current
2010-09-23	jprocter	Jalview 2.6 source licence	blob \| commitdiff \| diff to current
2010-08-31	jprocter	notes re JAL-629	blob \| commitdiff \| diff to current
2010-08-06	jprocter	interactive/batch mode test for groovy scripting (See...	blob \| commitdiff \| diff to current
2010-06-12	jprocter	documented the -colour command line argument.	blob \| commitdiff \| diff to current
2010-06-09	jprocter	OSX look and feel JAL-577	blob \| commitdiff \| diff to current
2010-05-14	jprocter	standard function for bootstrapping discovery threads	blob \| commitdiff \| diff to current
2010-04-30	jprocter	jalview 2.5 release banner	blob \| commitdiff \| diff to current
2010-02-10	jprocter	das feature fetch followed by png output fixed (bug...	blob \| commitdiff \| diff to current
2009-11-09	jprocter	more spin on GA prompt	blob \| commitdiff \| diff to current
2009-11-09	jprocter	user friendly GA and privacy statement	blob \| commitdiff \| diff to current
2009-10-13	jprocter	prompt user to enable usage stats	blob \| commitdiff \| diff to current
2009-07-24	jprocter	explicitly grab all permissions for application executi...	blob \| commitdiff \| diff to current
2009-06-12	jprocter	retrieve and init vamsas session from vdoc at URL	blob \| commitdiff \| diff to current
2009-06-08	jprocter	clargs documentation, new vamsas session import and...	blob \| commitdiff \| diff to current
2009-06-01	jprocter	first experiment with GA application use tracking	blob \| commitdiff \| diff to current
2009-03-17	jprocter	sortbytree/nosortbytree and defprop arguments. (defprop...	blob \| commitdiff \| diff to current
2008-12-04	jprocter	added local das sequence source CLI and documentation	blob \| commitdiff \| diff to current
2008-12-04	jprocter	allow sequence source to be specified as sequence:mydas...	blob \| commitdiff \| diff to current
2008-09-04	jprocter	merge from 2_4_Release branch	blob \| commitdiff \| diff to current
2008-06-30	jprocter	safer retrieval of groovy scripts from URLs	blob \| commitdiff \| diff to current
2008-01-29	jprocter	groovy scripts can be read from stdin	blob \| commitdiff \| diff to current
2008-01-11	jprocter	added groovy argument for launching a groovy script...	blob \| commitdiff \| diff to current
2007-11-12	jprocter	javadoc and introduction of dasserver and fetchdas...	blob \| commitdiff \| diff to current
2007-08-01	jprocter	added the '-tree' parameter to open a tree from the...	blob \| commitdiff \| diff to current
2007-07-30	jprocter	test cc change revoked.	blob \| commitdiff \| diff to current
2007-07-30	jprocter	test cc	blob \| commitdiff \| diff to current
2007-05-04	amwaterhouse	New example file for version 2.3	blob \| commitdiff \| diff to current
2007-05-04	amwaterhouse	New example file for version 2.3	blob \| commitdiff \| diff to current
2007-02-07	amwaterhouse	Formatting	blob \| commitdiff \| diff to current
2007-02-06	jprocter	hardwired default user questionnaire url and by default...	blob \| commitdiff \| diff to current
2007-02-05	jprocter	command line hook for questionnaire url argument.	blob \| commitdiff \| diff to current
2007-02-02	amwaterhouse	LookandFeel must be set in headless state as window...	blob \| commitdiff \| diff to current
2006-11-06	amwaterhouse	Remember fileName in alignFrame	blob \| commitdiff \| diff to current
2006-09-11	amwaterhouse	Error message if file not found moved for headless...	blob \| commitdiff \| diff to current
2006-08-21	amwaterhouse	header updated	blob \| commitdiff \| diff to current
2006-08-10	amwaterhouse	file: is a URL	blob \| commitdiff \| diff to current
2006-07-07	amwaterhouse	Colour argument added, to mirror applet view	blob \| commitdiff \| diff to current
2006-06-09	amwaterhouse	parseFeaturesFile	blob \| commitdiff \| diff to current
2006-05-11	amwaterhouse	Recently loaded files, urls, append sequences to Alignment	blob \| commitdiff \| diff to current
2006-04-04	amwaterhouse	Add annoations from the command line	blob \| commitdiff \| diff to current
2006-04-04	amwaterhouse	Jalview2XML does not use static load	blob \| commitdiff \| diff to current
2006-03-08	amwaterhouse	IdentifyFile should not be static	blob \| commitdiff \| diff to current
2006-01-12	jprocter	ensured properties are loaded before loggers are initia...	blob \| commitdiff \| diff to current
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