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

2022-08-15	Jim Procter	JAL-4059 update Jmol and JSmol to 15.2.69 - revised... task/JAL-4059_updateJmolandSwingJS	blob \| commitdiff
2022-02-11	Jim Procter	JAL-3949 - refactor logging from jalview.bin.Cache...	blob \| commitdiff \| diff to current
2022-02-11	Ben Soares	JAL-3949 Complete new abstracted logging framework...	blob \| commitdiff \| diff to current
2021-09-15	Ben Soares	JAL-3818 formatting	blob \| commitdiff \| diff to current
2021-09-15	gmungoc	JAL-3818 process Jmol callbacks in AWT thread	blob \| commitdiff \| diff to current
2021-09-02	gmungoc	JAL-1842 remove redundant call to FeatureRenderer.featu...	blob \| commitdiff \| diff to current
2021-09-02	gmungoc	JAL-3509 better placement of call to notifyFeaturesChan...	blob \| commitdiff \| diff to current
2021-09-02	gmungoc	JAL-3509 coerce RESNUM to hidden (really) after fetchin...	blob \| commitdiff \| diff to current
2021-02-11	gmungoc	JAL-3818 process Jmol callbacks in AWT thread bug/JAL-3818_jmolDeadlock	blob \| commitdiff \| diff to current
2020-05-29	gmungoc	JAL-3551 null pointer defence while structure files... feature/JAL-3551Pymol	blob \| commitdiff \| diff to current
2020-05-26	gmungoc	JAL-1761 pattern for structure viewer construction...	blob \| commitdiff \| diff to current
2020-05-21	gmungoc	JAL-3551 copy Jalview features to Pymol 'p' (with pull...	blob \| commitdiff \| diff to current
2020-05-20	gmungoc	JAL-3626 use Viewer.scriptWait() to send Jmol commands...	blob \| commitdiff \| diff to current
2020-05-19	gmungoc	Merge branch 'develop' into feature/JAL-3551Pymol	blob \| commitdiff \| diff to current
2020-05-15	gmungoc	JAL-3551 pull up Close Viewer dialog to base class	blob \| commitdiff \| diff to current
2020-05-12	gmungoc	JAL-3518 tidy method, remove obsolete comment	blob \| commitdiff \| diff to current
2020-05-12	gmungoc	JAL-3518 failsafe check for null Jmol filename while...	blob \| commitdiff \| diff to current
2020-04-30	gmungoc	JAL-3551 save structure viewer session refactorings...	blob \| commitdiff \| diff to current
2020-03-16	gmungoc	JAL-3551 tidying, improved commands, fix Jmol model...	blob \| commitdiff \| diff to current
2020-03-13	gmungoc	JAL-3551 working proof of concept of Jalview driving...	blob \| commitdiff \| diff to current
2020-03-03	gmungoc	JAL-3158 superseded superposeStructures methods removed	blob \| commitdiff \| diff to current
2020-03-03	gmungoc	JAL-3518 more pull up / test coverage of structure...	blob \| commitdiff \| diff to current
2020-02-28	gmungoc	JAL-3518 basic refactoring / pull up of superposeStruct...	blob \| commitdiff \| diff to current
2020-02-21	gmungoc	JAL-2422 tidy of methods and parameters	blob \| commitdiff \| diff to current
2020-02-21	gmungoc	JAL-2422 general pull-up/removal of common or unused...	blob \| commitdiff \| diff to current
2020-02-20	gmungoc	JAL-2422 pull-up refactoring of structure commands...	blob \| commitdiff \| diff to current
2020-02-06	gmungoc	JAL-1842 remove redundant call to FeatureRenderer.featu...	blob \| commitdiff \| diff to current
2020-02-06	gmungoc	JAL-3509 better placement of call to notifyFeaturesChan...	blob \| commitdiff \| diff to current
2020-02-06	gmungoc	JAL-3509 coerce RESNUM to hidden (really) after fetchin...	blob \| commitdiff \| diff to current
2020-02-04	gmungoc	JAL-2422 pull up refactoring in preparation for Chimera...	blob \| commitdiff \| diff to current
2019-10-08	gmungoc	Merge branch 'develop' into Jalview-JS/develop	blob \| commitdiff \| diff to current
2019-07-16	gmungoc	JAL-3210 Merge branch 'develop' into trialMerge	blob \| commitdiff \| diff to current
2019-07-05	gmungoc	JAL-3187 initial refactoring towards peptide variant...	blob \| commitdiff \| diff to current
2019-06-06	gmungoc	Merge branch 'develop' into trialMerge	blob \| commitdiff \| diff to current
2019-05-06	gmungoc	JAL-3244 delete obsolete method	blob \| commitdiff \| diff to current
2019-04-16	hansonr	localizes Thread colourby so that it does not cause...	blob \| commitdiff \| diff to current
2019-03-20	Ben Soares	JAL-3130 Lots of deprecation fixes. See utils/deprecat...	blob \| commitdiff \| diff to current
2019-02-19	gmungoc	JAL-3187 hacks to get peptide variant in to Jmol hover...	blob \| commitdiff \| diff to current
2018-12-25	hansonr	better Jmol help link	blob \| commitdiff \| diff to current
2018-12-06	gmungoc	Merge branch 'develop' into Jalview-BH/JAL-3026-JAL...	blob \| commitdiff \| diff to current
2018-12-06	gmungoc	JAL-1854 fix Checkstyle import violations	blob \| commitdiff \| diff to current
2018-08-27	hansonr	JAL-3026 Jmol functioning; some issues	blob \| commitdiff \| diff to current
2018-08-24	hansonr	JAL-3026 GD#107,128,130,139 build-site.xml	blob \| commitdiff \| diff to current
2018-08-21	hansonr	mc_view references were MCview	blob \| commitdiff \| diff to current
2018-07-22	hansonr	allows for null Jmol viewer	blob \| commitdiff \| diff to current
2018-05-04	Jim Procter	Merge branch 'bug/JAL-2899' into releases/Release_2_10_...	blob \| commitdiff \| diff to current
2018-05-01	Jim Procter	JAL-2899 colouring moved from SwingWorker to a backgrou...	blob \| commitdiff \| diff to current
2018-04-30	Jim Procter	Merge branch 'bug/JAL-2899' into releases/Release_2_10_...	blob \| commitdiff \| diff to current
2018-04-05	Jim Procter	JAL-2945 resolve model as PDB file. Need to verify...	blob \| commitdiff \| diff to current
2018-02-02	gmungoc	JAL-2899 asynchronous Jmol colour updates bug/JAL-2899	blob \| commitdiff \| diff to current
2017-10-27	gmungoc	JAL-1793 spike branch updated to latest	blob \| commitdiff \| diff to current
2017-10-25	Jim Procter	Merge branch 'bug/JAL-2392_deadlockonpdbdisplay' into...	blob \| commitdiff \| diff to current
2017-10-24	gmungoc	JAL-2738 update spike branch with latest	blob \| commitdiff \| diff to current
2017-10-23	gmungoc	JAL-1854 keep fallthrough but with comment to suppress...	blob \| commitdiff \| diff to current
2017-10-23	gmungoc	JAL-1854 remove fallthrough of switch case (Checkstyle...	blob \| commitdiff \| diff to current
2017-10-10	Jim Procter	Merge branch 'codereviews/JAL-1990_IProgressIndicator_j...	blob \| commitdiff \| diff to current
2017-10-03	gmungoc	JAL-2738 copy to spikes/mungo	blob \| commitdiff \| diff to current
2017-08-16	Jim Procter	JAL-2418 source formatting	blob \| commitdiff \| diff to current
2017-06-09	gmungoc	JAL-2446 merged to spike branch	blob \| commitdiff \| diff to current
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
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