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

2017-02-27	gmungoc	JAL-1632 similarity options on TreeChooser panel affect...	blob \| commitdiff
2016-12-16	gmungoc	JAL-2360 added UserColourScheme.toAppletParameter+test...	blob \| commitdiff \| diff to current
2016-12-16	gmungoc	JAL-2360 getColour() renamed to getColourScheme(),...	blob \| commitdiff \| diff to current
2016-11-25	gmungoc	Merge branch 'develop' into trialMerge	blob \| commitdiff \| diff to current
2016-11-14	tcofoegbu	JAL-2322 Refactored unified architecture for data ...	blob \| commitdiff \| diff to current
2016-11-11	tcofoegbu	JAL-2277 Refactored out duplicated method - printUnwrap...	blob \| commitdiff \| diff to current
2016-10-26	tcofoegbu	JAL-2284 basic support for exporting BioJS MSA viewer... features/JAL-2284_export-biojsmsa-via-cli	blob \| commitdiff \| diff to current
2016-10-25	Jim Procter	JAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch	blob \| commitdiff \| diff to current
2016-10-06	Jim Procter	JAL-2089 Merge branch releases/Release_2_10_Branch...	blob \| commitdiff \| diff to current
2016-10-05	gmungoc	JAL-1191 revert to using SequenceOntologyLite due to...	blob \| commitdiff \| diff to current
2016-10-05	gmungoc	JAL-1191 configure full SO for desktop, SOLite for...	blob \| commitdiff \| diff to current
2016-08-30	gmungoc	Merge branch 'develop' into features/filetypeEnum	blob \| commitdiff \| diff to current
2016-08-08	gmungoc	JAL-2168 document '-nonews' parameter	blob \| commitdiff \| diff to current
2016-08-05	gmungoc	JAL-2168 skip news feed if parameter "-nonews" is supplied	blob \| commitdiff \| diff to current
2016-07-11	gmungoc	file format enum wip changes	blob \| commitdiff \| diff to current
2016-06-20	Jim Procter	Merge branch 'develop' into features/JAL-1812_JAL-2083_... features/JAL-1812_JAL-2083_groovyBinding	blob \| commitdiff \| diff to current
2016-05-04	gmungoc	Merge branch 'groovy/JAL-2074_upgradeto2.4.4' into...	blob \| commitdiff \| diff to current
2016-05-02	gmungoc	JAL-1812 bind Groovy to Jalview rather than Desktop...	blob \| commitdiff \| diff to current
2016-04-28	gmungoc	JAL-2083 removed use of reflection for Groovy	blob \| commitdiff \| diff to current
2016-04-26	gmungoc	JAL-1981 catch any exception when setting QuaQua look...	blob \| commitdiff \| diff to current
2016-04-25	Jim Procter	JAL-2074 disable security manager at start up re: lopic...	blob \| commitdiff \| diff to current
2015-11-21	gmungoc	JAL-653 JAL-1968 FeaturesFile now handles Jalview or...	blob \| commitdiff \| diff to current
2015-10-16	Jim Procter	JAL-1925 update source version in license Release_2_9_0b2	blob \| commitdiff \| diff to current
2015-10-08	Jim Procter	JAL-1894 update year/version in copyright	blob \| commitdiff \| diff to current
2015-10-08	Jim Procter	Merge branch 'develop' into Release_2_9_0b1_Branch	blob \| commitdiff \| diff to current
2015-10-05	gmungoc	JAL-1812 set/return currentAlFrame for Groovy in headle...	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 source formatting and organise imports	blob \| commitdiff \| diff to current
2015-07-13	tcofoegbu	JAL-1788 added help documentation for biojson	blob \| commitdiff \| diff to current
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
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