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[jalview.git] / src / jalview / ext / jmol / JalviewJmolBinding.java

2017-08-16	Jim Procter	JAL-2418 source formatting	blob \| commitdiff
2017-05-29	Jim Procter	Merge branch 'features/JAL-2465_No-mapping_Jmol-structu...	blob \| commitdiff \| diff to current
2017-05-01	tcofoegbu	JAL-2465 bugfix and rerefactor renamed getPdbFile(...	blob \| commitdiff \| diff to current
2017-04-24	kiramt	JAL-2388 Hidden cols separated from column selection...	blob \| commitdiff \| diff to current
2017-03-21	gmungoc	JAL-2438 check for null FeatureRenderer	blob \| commitdiff \| diff to current
2017-03-13	gmungoc	JAL-2438 FeatureColourFinder refactored from FeatureRen...	blob \| commitdiff \| diff to current
2017-03-08	gmungoc	JAL-2430 colour columns hidden in alignment gray on...	blob \| commitdiff \| diff to current
2017-03-07	gmungoc	JAL-2295 status messages for Chimera attributes set...	blob \| commitdiff \| diff to current
2017-01-09	gmungoc	JAL-2371 remove ColourSchemeI.findColour(c), pure inter...	blob \| commitdiff \| diff to current
2016-12-22	gmungoc	JAL-2360 structure viewers now using ColourMenuHelper...	blob \| commitdiff \| diff to current
2016-12-12	gmungoc	JAL-2632 corrected lookup of residue colour	blob \| commitdiff \| diff to current
2016-11-25	gmungoc	Merge branch 'develop' into trialMerge	blob \| commitdiff \| diff to current
2016-11-22	Jim Procter	Merge branch 'features/JAL-2177_update_jmol_to_14.6...	blob \| commitdiff \| diff to current
2016-11-10	tcofoegbu	JAL-2317 Fixed Chimera command for hiding/showing disti... bug/JAL-2317_jmol_chimera-chain-factorisation	blob \| commitdiff \| diff to current
2016-11-10	tcofoegbu	Bugfix to enable accurate chain extraction/association...	blob \| commitdiff \| diff to current
2016-10-27	tcofoegbu	JAL-2177 Jmol update from: Jmol-14.2.14_2015.06.11...	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
2016-10-24	Jim Procter	Merge branch 'releases/Release_2_10_0_Branch'	blob \| commitdiff \| diff to current
2016-10-13	gmungoc	JAL-2044 ensure AAStructureBindingModel.pdbEntry has...	blob \| commitdiff \| diff to current
2016-10-11	gmungoc	JAL-2233 reverted changes to Jmol logging levels	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	Jim Procter	JAL-2189 source formatting	blob \| commitdiff \| diff to current
2016-09-27	gmungoc	JAL-2233 less verbose logging for Jmol	blob \| commitdiff \| diff to current
2016-07-11	gmungoc	file format enum wip changes	blob \| commitdiff \| diff to current
2016-06-23	gmungoc	JAL-2130 now simply viewer.dispose() to close down...	blob \| commitdiff \| diff to current
2016-06-20	gmungoc	JAL-2130 call viewer.dispose() on closing Jmol	blob \| commitdiff \| diff to current
2016-03-22	tcofoegbu	JAL-1919 code improvement to make PDB sequence fetcher...	blob \| commitdiff \| diff to current
2016-02-25	tcofoegbu	JAL-1919 initial support for mmCIF using JMol API....	blob \| commitdiff \| diff to current
2015-11-11	tcofoegbu	JAL-1479 JAL-1957 Added code to enable simultaneous...	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
2015-09-10	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
2015-08-26	gmungoc	JAL-1759 corrected syntax for 'atom picked' callback...	blob \| commitdiff \| diff to current
2015-08-19	gmungoc	JAL-1742 suppress 'add chain' option for Jmol, pull...	blob \| commitdiff \| diff to current
2015-08-05	Jim Procter	JAL-1821 patch for completeness - first model number...	blob \| commitdiff \| diff to current
2015-08-03	Jim Procter	JAL-1821 JAL-1759 reinstate rotation speed configuratio...	blob \| commitdiff \| diff to current
2015-08-03	Jim Procter	JAL-1821 JAL-1759 updated Jmol has different model...	blob \| commitdiff \| diff to current
2015-08-03	Jim Procter	JAL-1821 avoid race condition when multiple structures...	blob \| commitdiff \| diff to current
2015-06-30	gmungoc	JAL=1759 fix Jmol state command bug; remove debug output	blob \| commitdiff \| diff to current
2015-06-30	gmungoc	JAL-1759 unused JmolPopup removed, code tidy for generics	blob \| commitdiff \| diff to current
2015-06-30	gmungoc	JAL-1759 JMol now Jmol !	blob \| commitdiff \| diff to current
2015-06-26	gmungoc	JAL-1759 updates for Jmol 14.2.14_25.06.11	blob \| commitdiff \| diff to current
2015-06-05	gmungoc	JAL-1622 fix bug computing superposition + associated...	blob \| commitdiff \| diff to current
2015-06-04	gmungoc	JAL-1750 View Mapping scoped to that viewer's mappings...	blob \| commitdiff \| diff to current
2015-06-04	gmungoc	JAL-1757 match only first altloc CA in PDB structure...	blob \| commitdiff \| diff to current
2015-05-20	gmungoc	JAL-1741 nucleotide-aware colour schemes applied to...	blob \| commitdiff \| diff to current
2015-03-26	gmungoc	Merge develop to Release_2_8_3_Branch	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
2015-01-06	gmungoc	JAL-1588 refactoring prior to 'save Chimera project'	blob \| commitdiff \| diff to current
2014-12-15	Jim Procter	JAL-1620 version bump and release notes	blob \| commitdiff \| diff to current
2014-09-23	darolmar	JAL-1355	blob \| commitdiff \| diff to current
2014-07-02	Jim Procter	JAL-1333 JAL-1527 refactors to create core structure...	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
2014-05-22	Jim Procter	JAL-1503 update version in GPL header	blob \| commitdiff \| diff to current
2014-04-21	Jim Procter	JAL-1476 - don't send broken commands to Jmol when...	blob \| commitdiff \| diff to current
2014-01-29	Jim Procter	JAL-1432 updated copyright notices	blob \| commitdiff \| diff to current
2013-07-07	Jim Procter	JAL-1345 - set nSeconds arg for chemapps.stolaf.edu...	blob \| commitdiff \| diff to current
2013-07-07	Jim Procter	JAL-1016 Instruct user to report situations where the...	blob \| commitdiff \| diff to current
2013-07-07	Jim Procter	JAL-583 refactor todo about separating code to construc...	blob \| commitdiff \| diff to current
2013-07-07	Jim Procter	fix for JAL-1016 - wait around until we have a complete...	blob \| commitdiff \| diff to current
2013-07-07	Jim Procter	JAL-1016 - do our assertions immediatly	blob \| commitdiff \| diff to current
2012-10-24	jprocter	JAL-1193 patch prevents JalviewJmolBinding from handlin...	blob \| commitdiff \| diff to current
2012-10-22	jprocter	Jalview 2.8 Source Header	blob \| commitdiff \| diff to current
2012-10-03	jprocter	formatting	blob \| commitdiff \| diff to current
2012-09-05	jprocter	JAL-1162 catch security exception and just use bare...	blob \| commitdiff \| diff to current
2012-03-01	jprocter	Merge branch 'Release_2_7_Branch' into develop	blob \| commitdiff \| diff to current
2012-02-12	Jim Procter	(JAL-1016) noted position where race condition occurs	blob \| commitdiff \| diff to current
2012-02-12	Jim Procter	(JAL-1022) ensure all Jmol model filenames are normalis...	blob \| commitdiff \| diff to current
2012-02-12	Jim Procter	JAL-1025 JAL-1022 use File based equivalence to map...	blob \| commitdiff \| diff to current
2011-11-04	jprocter	Merge branch 'JAL-980_jmol_patch' into develop	blob \| commitdiff \| diff to current
2011-11-04	jprocter	(JAL-980) update binding for refactored Jmol constants...	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
2011-09-14	jprocter	fix for JAL-930	blob \| commitdiff \| diff to current
2011-07-05	jprocter	refactor to send list of model filenames involved in...	blob \| commitdiff \| diff to current
2011-05-17	jprocter	refactor to allow distinct StructureSelectionManager...	blob \| commitdiff \| diff to current
2011-05-05	jprocter	separation of jmol script command generation from jmol...	blob \| commitdiff \| diff to current
2011-04-22	jprocter	moved loadingFromArchive flag modification to after...	blob \| commitdiff \| diff to current
2011-02-18	jprocter	call to release any explicit event handler references	blob \| commitdiff \| diff to current
2010-11-11	jprocter	patch for JAL-655	blob \| commitdiff \| diff to current
2010-09-23	jprocter	remove overrides	blob \| commitdiff \| diff to current
2010-09-23	jprocter	Jalview 2.6 source licence	blob \| commitdiff \| diff to current
2010-09-22	jprocter	jmol update	blob \| commitdiff \| diff to current
2010-09-19	jprocter	resolve pdb id/chain to pdb file/model number and chain	blob \| commitdiff \| diff to current
2010-09-14	jprocter	streamlined app and applet jmol console + event handlin...	blob \| commitdiff \| diff to current
2010-09-13	jprocter	refactored to remove App reference in Applet (JAL-638)	blob \| commitdiff \| diff to current
2010-09-13	jprocter	refactored to remove App reference in Applet (JAL-638)	blob \| commitdiff \| diff to current
2010-09-13	jprocter	patched Jmol and code for embedding JmolAppConsole...	blob \| commitdiff \| diff to current
2010-09-08	jprocter	todos & added simple method for other classes to monito...	blob \| commitdiff \| diff to current
2010-09-02	jprocter	increment if strings dont match	blob \| commitdiff \| diff to current
2010-08-31	jprocter	fixed various null pointer exceptions that occur when...	blob \| commitdiff \| diff to current
2010-08-27	jprocter	patch for structures with multiple models, and refactor...	blob \| commitdiff \| diff to current
2010-08-27	jprocter	1.2 compatibility	blob \| commitdiff \| diff to current
2010-08-27	jprocter	revised sequence/structure binding so one structure...	blob \| commitdiff \| diff to current
2010-08-25	jprocter	correct initing of JmolViewer to avoid security excepti...	blob \| commitdiff \| diff to current
2010-08-20	jprocter	refactor jmol api so it doesn't clash with Swing compon...	blob \| commitdiff \| diff to current
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