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2023-11-23	Ben Soares	JAL-4059 Made jalview.bin.JalviewJS to use new command...	commit \| commitdiff \| tree
2023-11-23	Ben Soares	Merge branch 'develop' into bug/JAL-4238_PAEs_not_being_show...	commit \| commitdiff \| tree
2023-11-23	Ben Soares	JAL-4059 rename vars to j2s_ this and that for clarity	commit \| commitdiff \| tree
2023-11-22	Ben Soares	JAL-4059 Send bespoke Info hash parameters into jalview...	commit \| commitdiff \| tree
2023-11-21	Ben Soares	JAL-4238 an attempt to set JalviewJS desktop overflow...	commit \| commitdiff \| tree
2023-11-21	Ben Soares	JAL-4238 Changing visibility of locateInRange(int)...	commit \| commitdiff \| tree
2023-11-21	Ben Soares	JAL-4238 example file added to exmaples	commit \| commitdiff \| tree
2023-11-21	Ben Soares	JAL-4238 test files for PAE in jalviewjs	commit \| commitdiff \| tree
2023-11-21	Ben Soares	JAL-4059 updated swingjs, Jmol-SwingJS.zip. Insignificantly...	commit \| commitdiff \| tree
2023-11-20	Ben Soares	JAL-4348 Add newer versions of Chimera and ChimeraX...	commit \| commitdiff \| tree
2023-11-16	Ben Soares	JAL-4243 Updated bio.tools record for 2.11.3.0	commit \| commitdiff \| tree
2023-11-16	Ben Soares	Merge branch 'develop' into bug/JAL-4238_PAEs_not_being_show...	commit \| commitdiff \| tree
2023-11-16	Ben Soares	JAL-4340 Change launch scripts to be xresources to...	commit \| commitdiff \| tree
2023-11-16	Ben Soares	JAL-4238 ignore thread.sleeps in jalviewjs. Added a...	commit \| commitdiff \| tree
2023-11-16	Ben Soares	Merge branch 'bug/JAL-4059_update_swingJS_for_JalviewJS_2_11...	commit \| commitdiff \| tree
2023-11-16	Ben Soares	JAL-4059 Revert libjs/MiGLayout as new miglayout transpile...	commit \| commitdiff \| tree
2023-11-15	Ben Soares	Merge branch 'develop' into bug/JAL-4238_PAEs_not_being_show...	commit \| commitdiff \| tree
2023-11-15	Ben Soares	JAL-3836 Allow .ext.gz files to be recognised in the...	commit \| commitdiff \| tree
2023-11-15	Ben Soares	Merge branch 'bug/JAL-4059_update_swingJS_for_JalviewJS_2_11...	commit \| commitdiff \| tree
2023-11-15	Ben Soares	JAL-4059 update intervalstore-1.2-site.zip transpiled...	commit \| commitdiff \| tree
2023-11-15	Ben Soares	Merge branch 'feature/JAL-3576intervalStore_1_2' into...	commit \| commitdiff \| tree
2023-11-14	Ben Soares	JAL-4238 examples files for PAE	commit \| commitdiff \| tree
2023-11-14	Ben Soares	JAL-4059 added test for <br/> break	commit \| commitdiff \| tree
2023-11-13	Ben Soares	Merge branch 'bug/JAL-4059_update_swingJS_for_JalviewJS_2_11...	commit \| commitdiff \| tree
2023-11-13	Ben Soares	JAL-4059 fix other PopupMenuTest	commit \| commitdiff \| tree
2023-11-13	Ben Soares	JAL-4059 revert to intervalstore 1.1 for VCFLoader	commit \| commitdiff \| tree
2023-11-13	Ben Soares	Merge branch 'develop' into bug/JAL-4059_update_swingJS_for_...	commit \| commitdiff \| tree
2023-11-13	Ben Soares	JAL-4059 fixed a test that is now working as expected...	commit \| commitdiff \| tree
2023-11-13	Ben Soares	JAL-4059 Fix the tooltip formatting for when, e.g....	commit \| commitdiff \| tree
2023-11-13	Ben Soares	JAL-4059 redo these tests as TestNG asserts to add...	commit \| commitdiff \| tree
2023-11-13	Ben Soares	Merge branch 'develop' into bug/JAL-4059_update_swingJS_for_...	commit \| commitdiff \| tree
2023-11-13	Ben Soares	JAL-4059 Updates to miglayout, varna, intervalstore...	commit \| commitdiff \| tree
2023-11-13	Ben Soares	JAL-4059 updated intervalstore jars to match updating...	commit \| commitdiff \| tree
2023-11-10	Ben Soares	JAL-4240 Remove unnecessary whitespace, being rendered...	commit \| commitdiff \| tree
2023-11-10	Ben Soares	JAL-4059 tidyup	commit \| commitdiff \| tree
2023-11-10	Ben Soares	JAL-4059 Change long querystringnamespace to namespace...	commit \| commitdiff \| tree
2023-11-10	Ben Soares	JAL-4059 Tidy getting the namespace, and save the namespace...	commit \| commitdiff \| tree
2023-11-10	Ben Soares	JAL-4059 fix not merging html files to the final site...	commit \| commitdiff \| tree
2023-11-10	Ben Soares	JAL-4059 SwingJS from java2script github repo. It...	commit \| commitdiff \| tree
2023-11-10	Ben Soares	JAL-4059 Checked through and fixed build tasks	commit \| commitdiff \| tree
2023-11-09	Ben Soares	JAL-4059 Fix up Jsmol calls and delete html files from...	commit \| commitdiff \| tree
2023-11-09	Ben Soares	JAL-4090 minor missing word correction to whatsnew	commit \| commitdiff \| tree
2023-11-07	Ben Soares	JAL-4059 fix that boolean for non-value query string...	commit \| commitdiff \| tree
2023-11-07	Ben Soares	Merge branch 'develop' into bug/JAL-4059_update_swingJS_for_...	commit \| commitdiff \| tree
2023-11-07	Ben Soares	JAL-4059 --timeout not needed with --virtual-time-budget	commit \| commitdiff \| tree
2023-11-03	Ben Soares	JAL-4239 Using own id generation to avoid Random.nextLong...	commit \| commitdiff \| tree
2023-11-02	Ben Soares	Merge branch 'develop' into bug/JAL-4059_update_swingJS_for_...	commit \| commitdiff \| tree
2023-11-02	Ben Soares	JAL-4059 updated _j2sclasslist.txt	commit \| commitdiff \| tree
2023-11-02	Ben Soares	JAL-4059 updated test for StringUtils	commit \| commitdiff \| tree
2023-11-02	Ben Soares	JAL-4059 New namespaced query string parameters.	commit \| commitdiff \| tree
2023-11-02	Ben Soares	JAL-4059 swingjs and Jmol-SwingJS.zip from Jmol github.	commit \| commitdiff \| tree
2023-11-02	Ben Soares	JAL-4059 Update closure-compiler.	commit \| commitdiff \| tree
2023-11-01	Ben Soares	JAL-4059 Add the newest exampleFile_2_7.jar to the...	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4059 simpler reimplementation of StringUtils.separatorLi...	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4059 Actually fix the order of js lib syncs to...	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4059 upgraded Jmol	commit \| commitdiff \| tree
2023-10-31	Ben Soares	Merge branch 'develop' into bug/JAL-4059_update_swingJS_for_...	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4319 Downgrade shadow(Jar) module to stop triggering...	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4059 Just keeping these jsmol versions handy. ...	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4059 If we upgrade Jsmol, do we want to upgrade...	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4059 Converting Pattern/Matcher methods that are...	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4059 rename jsmol zip file for clarity	commit \| commitdiff \| tree
2023-10-31	Ben Soares	JAL-4059 ensure order of transferring JS lib zip files...	commit \| commitdiff \| tree
2023-10-26	Ben Soares	JAL-4059 Now using "Google Chrome for Testing" https...	commit \| commitdiff \| tree
2023-10-25	Ben Soares	Merge branch 'develop' into bug/JAL-4289_group_boundary_not_...	commit \| commitdiff \| tree
2023-10-24	Ben Soares	JAL-4059 Updated jmoljs and _j2sclasslist.txt	commit \| commitdiff \| tree
2023-10-23	Ben Soares	Merge branch 'develop' into bug/JAL-4059_update_swingJS_for_...	commit \| commitdiff \| tree
2023-10-20	Ben Soares	JAL-4298 Update help docs to reflect Groovy changes	commit \| commitdiff \| tree
2023-10-20	Ben Soares	JAL-4298 Remove a stray return in the processGroovyScript...	commit \| commitdiff \| tree
2023-10-20	Ben Soares	JAL-4298 another implicated line	commit \| commitdiff \| tree
2023-10-19	Ben Soares	Merge branch 'patch/JAL-4298_synchronize_consoledoc...	commit \| commitdiff \| tree
2023-10-19	Ben Soares	JAL-629 Fix --nodebug turning off debug mode from properties	commit \| commitdiff \| tree
2023-10-19	Ben Soares	JAL-4298 comment markers	commit \| commitdiff \| tree
2023-10-19	Ben Soares	Merge branch 'improvement/JAL-3783_upgrade_to_groovy...	commit \| commitdiff \| tree
2023-10-19	Ben Soares	JAL-4305 Isolate and unify the Jalview object from...	commit \| commitdiff \| tree
2023-10-19	Ben Soares	Merge branch 'improvement/JAL-3783_upgrade_to_groovy...	commit \| commitdiff \| tree
2023-10-18	Ben Soares	JAL-629 Run non-alignframe linked groovy scripts. ...	commit \| commitdiff \| tree
2023-10-18	Ben Soares	JAL-4262 Fix the nonblockingdialog so that Jalview...	commit \| commitdiff \| tree
2023-10-13	Ben Soares	JAL-3783 Updated groovy jars. Requires javaparser...	commit \| commitdiff \| tree
2023-10-13	Ben Soares	JAL-3783 Updated build process to allow multiple groovy...	commit \| commitdiff \| tree
2023-10-12	Ben Soares	JAL-3772 Fix the logic of prompt to save URL loaded...	commit \| commitdiff \| tree
2023-10-12	Ben Soares	JAL-629 null check and neatening code	commit \| commitdiff \| tree
2023-10-11	Ben Soares	JAL-629 correct a timeout. Correct passing html flag.	commit \| commitdiff \| tree
2023-10-11	Ben Soares	JAL-629 Add a timeout to modal dialogs for command...	commit \| commitdiff \| tree
2023-10-11	Ben Soares	JAL-629 Change getdown not to add -open argument	commit \| commitdiff \| tree
2023-10-11	Ben Soares	JAL-629 Remove argfiles from the hashset of used argfiles...	commit \| commitdiff \| tree
2023-10-11	Ben Soares	JAL-3772 Preference to NOT prompt to save remotely...	commit \| commitdiff \| tree
2023-10-11	Ben Soares	JAL-4298 Added diagnostics and minor dimension changes...	commit \| commitdiff \| tree
2023-10-05	Ben Soares	JAL-4298 Fixed initial log level to see .jalview_properties...	commit \| commitdiff \| tree
2023-10-03	Ben Soares	JAL-4001 Only use acquireDialogQueue and releaseDialogQueue...	commit \| commitdiff \| tree
2023-10-03	Ben Soares	Merge branch 'develop' into bug/JAL-4289_group_boundary_not_...	commit \| commitdiff \| tree
2023-10-02	Ben Soares	JAL-4289 In fastPaint(), don't render one more than...	commit \| commitdiff \| tree
2023-09-28	Ben Soares	JAL-4059 Fix an incorrectly applied change of method...	commit \| commitdiff \| tree
2023-09-28	Ben Soares	JAL-4059 Try and avoid Commands Error in jalviewjs...	commit \| commitdiff \| tree
2023-09-28	Ben Soares	JAL-3858 corrected URL fragment in docs	commit \| commitdiff \| tree
2023-09-27	Ben Soares	JAL-4059 swingjs version 3.3.1v6	commit \| commitdiff \| tree
2023-09-21	Ben Soares	JAL-4265 Use ColourUtils.parseColourString() for consistency...	commit \| commitdiff \| tree
2023-09-21	Ben Soares	Merge branch 'develop' into merge/JAL-4262+JAL-4265...	commit \| commitdiff \| tree
2023-09-20	Ben Soares	JAL-4265 Use ColorUtils.parseColourString() and adjust...	commit \| commitdiff \| tree
2023-09-20	Ben Soares	JAL-4265 Added saveState and restoreState to interface...	commit \| commitdiff \| tree
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