JAL-3949 fixed failing commandlinetests due to more output and line count limit
[jalview.git] / src / jalview / ext / jmol /
2022-02-11 Ben SoaresJAL-3949 Complete new abstracted logging framework...
2021-09-21 Ben SoaresJAL-3691 automatic insertion of Locale.ROOT to toUpperC...
2021-09-20 Jim ProcterJAL-3829 make sure structure data type reflects actual...
2021-09-15 Ben SoaresJAL-3818 formatting
2021-09-15 gmungocJAL-3818 process Jmol callbacks in AWT thread
2021-09-14 Jim ProcterJAL-3855 detect an alphafold model and import its tempe...
2021-09-02 gmungocJAL-1842 remove redundant call to FeatureRenderer.featu...
2021-09-02 gmungocJAL-3509 better placement of call to notifyFeaturesChan...
2021-09-02 gmungocJAL-3509 coerce RESNUM to hidden (really) after fetchin...
2020-06-23 gmungocJAL-3518 pull up closeViewer() and external viewer...
2020-05-29 gmungocJAL-3551 null pointer defence while structure files... feature/JAL-3551Pymol
2020-05-26 gmungocJAL-1761 pattern for structure viewer construction...
2020-05-21 gmungocJAL-3551 copy Jalview features to Pymol 'p' (with pull...
2020-05-20 gmungocJAL-3626 use Viewer.scriptWait() to send Jmol commands...
2020-05-19 gmungocMerge branch 'develop' into feature/JAL-3551Pymol
2020-05-15 gmungocJAL-3551 pull up Close Viewer dialog to base class
2020-05-12 gmungocJAL-3518 tidy method, remove obsolete comment
2020-05-12 gmungocJAL-3518 failsafe check for null Jmol filename while...
2020-05-11 gmungocJAL-3551 concatenate colour by sequence commands for...
2020-04-30 gmungocJAL-3551 save structure viewer session refactorings...
2020-03-16 gmungocJAL-3551 tidying, improved commands, fix Jmol model...
2020-03-13 gmungocJAL-3551 working proof of concept of Jalview driving...
2020-03-03 gmungocJAL-3158 superseded superposeStructures methods removed
2020-03-03 gmungocJAL-3518 more pull up / test coverage of structure...
2020-02-28 gmungocJAL-3518 basic refactoring / pull up of superposeStruct...
2020-02-21 gmungocJAL-2422 tidy of methods and parameters
2020-02-21 gmungocJAL-2422 general pull-up/removal of common or unused...
2020-02-20 gmungocJAL-2422 pull-up refactoring of structure commands...
2020-02-04 gmungocJAL-2422 pull up refactoring in preparation for Chimera...
2019-10-08 gmungocMerge branch 'develop' into Jalview-JS/develop
2019-07-16 gmungocJAL-3210 Merge branch 'develop' into trialMerge
2019-07-05 gmungocJAL-3187 initial refactoring towards peptide variant...
2019-06-06 gmungocMerge branch 'develop' into trialMerge
2019-05-06 gmungocJAL-3244 delete obsolete method
2019-04-16 hansonrlocalizes Thread colourby so that it does not cause...
2019-03-20 Ben SoaresJAL-3130 Lots of deprecation fixes. See utils/deprecat...
2019-02-19 gmungocJAL-3187 hacks to get peptide variant in to Jmol hover...
2018-12-25 hansonrbetter Jmol help link
2018-12-06 gmungocMerge branch 'develop' into Jalview-BH/JAL-3026-JAL...
2018-12-06 gmungocJAL-1854 fix Checkstyle import violations
2018-11-14 gmungocJAL-3032 don't throw Exception to signal chain not...
2018-11-14 gmungocJAL-3152 holding patch for colour Jmol by sequence
2018-08-27 hansonrJAL-3026 Jmol functioning; some issues
2018-08-24 hansonrJAL-3026 GD#107,128,130,139 build-site.xml
2018-08-21 hansonrmc_view references were MCview
2018-07-22 hansonrallows for null Jmol viewer
2018-06-28 hansonrJAL-3032 DND enabled; additional io changes for File...
2018-05-07 Jim ProcterJAL-2321 use StructureImportSettings singleton settings...
2018-05-07 Jim ProcterJAL-2321 allow JmolParser to be configured before parsi...
2018-05-04 Jim ProcterMerge branch 'bug/JAL-2899' into releases/Release_2_10_...
2018-05-01 Jim ProcterJAL-2899 colouring moved from SwingWorker to a backgrou...
2018-04-30 Jim ProcterMerge branch 'bug/JAL-2899' into releases/Release_2_10_...
2018-04-05 Jim ProcterJAL-2945 resolve model as PDB file. Need to verify...
2018-02-12 Jim ProcterJAL-2780 JAL-2781 ahem - add a semicolon if there isn...
2018-02-07 Jim ProcterJAL-2780 JAL-2781 don’t assume contiguous mapping to...
2018-02-02 gmungocJAL-2899 asynchronous Jmol colour updates bug/JAL-2899
2017-10-27 gmungocJAL-1793 spike branch updated to latest
2017-10-25 Jim ProcterMerge branch 'bug/JAL-2392_deadlockonpdbdisplay' into...
2017-10-24 gmungocJAL-2738 update spike branch with latest
2017-10-23 gmungocJAL-1854 keep fallthrough but with comment to suppress...
2017-10-23 gmungocJAL-1854 remove fallthrough of switch case (Checkstyle...
2017-10-10 Jim ProcterMerge branch 'codereviews/JAL-1990_IProgressIndicator_j...
2017-10-03 gmungocJAL-2738 copy to spikes/mungo
2017-08-21 gmungocMerge branch 'develop' into features/JAL-2446NCList features/JAL-2446NCList
2017-08-16 Jim ProcterJAL-2418 source formatting
2017-06-14 gmungocJAL-2598 Sequence.getSequence return a copy of the...
2017-06-09 gmungocJAL-2446 merged to spike branch
2017-05-29 Jim ProcterMerge branch 'features/JAL-2465_No-mapping_Jmol-structu...
2017-05-01 tcofoegbuJAL-2465 bugfix and rerefactor renamed getPdbFile(...
2017-04-24 kiramtJAL-2388 Hidden cols separated from column selection...
2017-03-31 gmungocJAL-2430 code tidy, unit test for Jmol hidden column...
2017-03-21 gmungocJAL-2438 check for null FeatureRenderer
2017-03-15 gmungocJAL-2443 push getResidueBoxColour inside getResidueColour
2017-03-13 gmungocJAL-2438 FeatureColourFinder refactored from FeatureRen...
2017-03-08 gmungocJAL-2430 colour columns hidden in alignment gray on...
2017-03-07 gmungocJAL-2295 status messages for Chimera attributes set...
2017-01-09 gmungocJAL-2371 remove ColourSchemeI.findColour(c), pure inter...
2016-12-22 gmungocJAL-2360 structure viewers now using ColourMenuHelper...
2016-12-12 gmungocJAL-2632 corrected lookup of residue colour
2016-11-25 gmungocMerge branch 'develop' into trialMerge
2016-11-22 Jim ProcterMerge branch 'features/JAL-2177_update_jmol_to_14.6...
2016-11-10 tcofoegbuJAL-2317 Fixed Chimera command for hiding/showing disti... bug/JAL-2317_jmol_chimera-chain-factorisation
2016-11-10 tcofoegbuBugfix to enable accurate chain extraction/association...
2016-10-27 tcofoegbuJAL-2177 Jmol update from: Jmol-14.2.14_2015.06.11...
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch
2016-10-24 Jim ProcterMerge branch 'releases/Release_2_10_0_Branch'
2016-10-17 tcofoegbuJAL-2262 JAL-2195 Improvement to set PDBId availability...
2016-10-13 gmungocMerge branch 'releases/Release_2_10_Branch' into develop
2016-10-13 gmungocJAL-2044 ensure AAStructureBindingModel.pdbEntry has...
2016-10-11 gmungocMerge branch 'releases/Release_2_10_Branch' into develop
2016-10-11 gmungocJAL-2233 reverted changes to Jmol logging levels
2016-10-10 tcofoegbuJAL-2262 JAL-2195 bug fix for mapping local structure...
2016-10-06 Jim ProcterJAL-2089 Merge branch releases/Release_2_10_Branch...
2016-10-05 Jim ProcterJAL-2189 source formatting
2016-09-27 gmungocJAL-2233 less verbose logging for Jmol
2016-09-16 gmungocJAL-2164 removed unused parameters from JmolParser...
2016-09-14 Jim ProcterJAL-2164 create RESNUM features with padding the same...
2016-09-07 Jim ProcterMerge branch 'develop' into bug/JAL-1803_JAL-2157
2016-09-07 Jim ProcterJAL-1803 JAL-1919 set type when structure file is parsed
2016-08-31 tcofoegbuJAL-2148 further enhancment to CA HETATM processing
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