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Merge branch 'releases/Release_2_11_3_Branch'
[jalview.git] / src / jalview / gui / AppJmol.java
2023-11-15 James ProcterJAL-4222 bail if we wait too long for Jmol to save... patch/JAL-4222_100s_timeout_on_imagexport commit | commitdiff
2023-09-19 Ben SoaresJAL-4265 Change to use JmolCommands commit | commitdiff
2023-09-16 Ben SoaresJAL-4265 Added --bgcolour for --structureimage output... commit | commitdiff
2023-09-13 Ben SoaresJAL-4274 Use Cache BITMAP_* if no other image restricti... commit | commitdiff
2023-08-10 Ben SoaresJAL-629 Change all stdout and stderr output to use... commit | commitdiff
2023-07-06 James ProcterJAL-629 make —structure image work again after threadin... commit | commitdiff
2023-07-06 James ProcterJAL-4217 wrap imageExport CLI method's call to imageExp... commit | commitdiff
2023-07-06 James ProcterJAL-4217 wrap imageExport CLI method's call to imageExp... commit | commitdiff
2023-06-07 James ProcterJAL-4195 add exception handling for all image output... commit | commitdiff
2023-05-23 Ben SoaresJAL-629 Added --structureimage code and formatting... commit | commitdiff
2023-05-22 Ben SoaresJAL-629 --structureimage with formatting args. commit | commitdiff
2022-03-08 Jim ProcterJAL-3438 spotless for 2.11.2.0 commit | commitdiff
2022-02-11 Jim ProcterJAL-3949 - refactor logging from jalview.bin.Cache... commit | commitdiff
2022-02-11 Ben SoaresJAL-3949 Complete new abstracted logging framework... commit | commitdiff
2021-09-21 Ben SoaresJAL-3691 automatic insertion of Locale.ROOT to toUpperC... commit | commitdiff
2021-09-14 Jim ProcterJAL-3829 JAL-3855 moved routing for retrieving structur... commit | commitdiff
2021-08-30 Jim ProcterJAL-3829 generalised Alphafold retrieval mechanism... commit | commitdiff
2021-07-27 Jim ProcterJAL-3855 check if an alpha fold ID and retrieve using... commit | commitdiff
2020-05-26 gmungocJAL-1761 pattern for structure viewer construction... commit | commitdiff
2020-05-21 gmungocJAL-3551 copy Jalview features to Pymol 'p' (with pull... commit | commitdiff
2020-05-20 gmungocJAL-3626 use Viewer.scriptWait() to send Jmol commands... commit | commitdiff
2020-05-19 gmungocMerge branch 'develop' into feature/JAL-3551Pymol commit | commitdiff
2020-05-15 gmungocJAL-3551 pull up Close Viewer dialog to base class commit | commitdiff
2020-05-11 gmungocJAL-2422 JAL-3551 viewer text/variables generalised... commit | commitdiff
2020-04-30 gmungocJAL-3551 save structure viewer session refactorings... commit | commitdiff
2020-03-13 gmungocJAL-3551 working proof of concept of Jalview driving... commit | commitdiff
2020-02-21 gmungocJAL-2422 tidy of methods and parameters commit | commitdiff
2020-02-20 gmungocJAL-2422 pull-up refactoring of structure commands... commit | commitdiff
2020-02-04 gmungocJAL-2422 pull up refactoring in preparation for Chimera... commit | commitdiff
2020-01-31 gmungocJAL-2422 temporary hacks removed; use hex colours for... commit | commitdiff
2019-07-16 gmungocJAL-3210 Merge branch 'develop' into trialMerge commit | commitdiff
2019-05-02 gmungocJAL-3244 renamed Platform method for clarity bug/JAL-3244jmolWindows commit | commitdiff
2019-05-01 gmungocJAL-3244 ignore file path separator when comparing... commit | commitdiff
2018-12-25 hansonrbetter Jmol help link commit | commitdiff
2018-08-27 hansonrJAL-3026 Jmol functioning; some issues commit | commitdiff
2018-07-23 gmungocJAL-3048 all image export (alignment, tree, PCA, Jmol... commit | commitdiff
2018-04-12 gmungocJAL-1847 minor post-review updates commit | commitdiff
2018-04-12 gmungocJAL-2944 tidies for review comments commit | commitdiff
2018-04-09 Jim ProcterJAL-1847 JAL-2944 make superposition step a configurabl... commit | commitdiff
2018-04-05 Jim ProcterJAL-2944 remove modal prompt logic and expose methods... commit | commitdiff
2018-04-05 Jim ProcterJAL-2944 pull up structure viewer discovery routine... commit | commitdiff
2017-10-27 gmungocJAL-1793 spike branch updated to latest commit | commitdiff
2017-10-10 Jim ProcterJAL-2392 formatting commit | commitdiff
2017-10-10 Jim ProcterMerge branch 'codereviews/JAL-1990_IProgressIndicator_j... commit | commitdiff
2017-10-03 gmungocJAL-2738 copy to spikes/mungo commit | commitdiff
2017-08-16 Jim ProcterJAL-2418 source formatting commit | commitdiff
2017-06-09 gmungocJAL-2446 merged to spike branch commit | commitdiff
2017-05-01 tcofoegbuJAL-2465 bugfix and rerefactor renamed getPdbFile(... commit | commitdiff
2017-03-02 gmungocJAL-2295 make 'Jmol' menu appear; enable/disable Superp... commit | commitdiff
2016-12-22 gmungocJAL-2360 structure viewers now using ColourMenuHelper... commit | commitdiff
2016-12-12 gmungocJAL-2361 extract methods to (re-)build colour menu commit | commitdiff
2016-12-08 gmungocJAL-2358 ensure mappings removed on close Chimera;... bug/JAL-2358phantomChimera commit | commitdiff
2016-11-24 tcofoegbuJAL-2326 updated references of JOptionPane to JvOptionPane commit | commitdiff
2016-11-10 tcofoegbuBugfix to enable accurate chain extraction/association... commit | commitdiff
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch commit | commitdiff
2016-10-24 Jim ProcterMerge branch 'releases/Release_2_10_0_Branch' commit | commitdiff
2016-10-13 gmungocJAL-2044 increase Jmol file load timeout from 5 to... commit | commitdiff
2016-10-11 gmungocJAL-2233 reverted changes to Jmol logging levels commit | commitdiff
2016-10-06 Jim ProcterJAL-2089 Merge branch releases/Release_2_10_Branch... commit | commitdiff
2016-10-05 Jim ProcterJAL-2189 source formatting commit | commitdiff
2016-09-29 gmungocJAL-2213 corrected wait for files to load in Jmol;... commit | commitdiff
2016-09-27 gmungocJAL-2233 less verbose logging for Jmol commit | commitdiff
2016-02-09 tcofoegbuJAL-1975 updated image export pipeline to produce more... commit | commitdiff
2015-10-16 Jim ProcterJAL-1925 update source version in license Release_2_9_0b2 commit | commitdiff
2015-10-08 Jim ProcterJAL-1894 update year/version in copyright commit | commitdiff
2015-10-05 Jim ProcterMerge branch 'develop' into Release_2_9_0b1_Branch commit | commitdiff
2015-09-25 gmungocJAL-1859 try hoverDelay of 0.1s in Jmol for more respon... commit | commitdiff
2015-09-10 Jim ProcterJAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin... commit | commitdiff
2015-09-10 Jim ProcterJAL-1645 source formatting and organise imports commit | commitdiff
2015-09-04 Jim ProcterJAL-1847 added AUTOSUPERIMPOSE property which can be... commit | commitdiff
2015-08-19 gmungocJAL-1742 suppress 'add chain' option for Jmol, pull... commit | commitdiff
2015-08-07 tcofoegbuJAL-1824 updated caching procedure for pdb entries... commit | commitdiff
2015-08-05 Jim ProcterJAL-1821 JAL-1759 make sure we wait around until the... commit | commitdiff
2015-06-30 gmungocJAL-1759 unused JmolPopup removed, code tidy for generics commit | commitdiff
2015-06-30 gmungocJAL-1759 unused field / methods removed commit | commitdiff
2015-06-26 gmungocJAL-1759 changed to non-deprecated Viewer.renderScreenI... commit | commitdiff
2015-06-26 gmungocMerge branch 'develop' into features/JAL-1759jmolUpdate commit | commitdiff
2015-06-26 gmungocJAL-1759 updates for Jmol 14.2.14_25.06.11 commit | commitdiff
2015-06-19 tcofoegbuJAL-1270 JUnit to TestNG refactoring commit | commitdiff
2015-06-10 gmungocJAL-1764 save Chimera/Jmol state as separate entries... commit | commitdiff
2015-06-05 gmungocJAL-1622 duplicate assignment removed (no functional... commit | commitdiff
2015-06-04 gmungocJAL-1750 View Mapping scoped to that viewer's mappings... commit | commitdiff
2015-04-30 tcofoegbuJAL-1717 updated the PDBEntry model and updated the... commit | commitdiff
2015-03-30 gmungocJAL-1596 refactoring to allow unit tests to start and... commit | commitdiff
2015-03-06 Jim ProcterJAL-1683 replace year/version strings with tokens in... commit | commitdiff
2015-03-06 Jim ProcterMerge commit 'ab43013b7e357b84b4abade0dba949668dfb2a0e... commit | commitdiff
2015-01-26 gmungocMerge branch 'features/JAL-1588saveChimeraSession'... commit | commitdiff
2015-01-26 gmungocJAL-1588 restoring saved Chimera session(s) commit | commitdiff
2015-01-08 gmungocJAL-1588 part work save/restore of Chimera session commit | commitdiff
2015-01-07 gmungocJAL-1588 refactoring to StructureViewerBase and related commit | commitdiff
2015-01-06 gmungocJAL-1588 refactoring prior to 'save Chimera project' commit | commitdiff
2014-12-22 Jim ProcterMerge: 497958b 68dcaa7 commit | commitdiff
2014-12-15 Jim ProcterJAL-1620 version bump and release notes commit | commitdiff
2014-12-05 Charles OfoegbuChange the Html export to utilize svg commit | commitdiff
2014-11-17 gmungocJAL-1528 bug fixes and adjustments to Chimera interface commit | commitdiff
2014-11-14 Jim ProcterMerge branch 'develop' into JAL-1483_featureBasedTreeCalc commit | commitdiff
2014-11-13 Jim ProcterMerge branch 'features/JAL-1469_svg-output-for-figure... commit | commitdiff
2014-11-12 Charles OfoegbuAdded support for SVG Export commit | commitdiff
2014-11-12 gmungocJAL-1528 bug fixes and adjustments to Chimera interface commit | commitdiff
2014-09-23 darolmarJAL-1355 commit | commitdiff
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