jalview.git
2023-10-20 Ben SoaresJAL-4298 Remove a stray return in the processGroovyScri...
2023-10-19 Ben SoaresJAL-4305 Isolate and unify the Jalview object from...
2023-10-18 Ben SoaresJAL-629 Run non-alignframe linked groovy scripts. ...
2023-10-13 Ben SoaresJAL-3783 Updated groovy jars. Requires javaparser...
2023-10-13 Ben SoaresJAL-3783 Updated build process to allow multiple groovy...
2023-10-12 Ben SoaresJAL-3772 Fix the logic of prompt to save URL loaded...
2023-10-12 Ben SoaresJAL-629 null check and neatening code
2023-10-11 Ben SoaresJAL-629 correct a timeout. Correct passing html flag.
2023-10-11 Ben SoaresJAL-629 Add a timeout to modal dialogs for command...
2023-10-11 Ben SoaresJAL-629 Change getdown not to add -open argument
2023-10-11 Ben SoaresJAL-629 Remove argfiles from the hashset of used argfil...
2023-10-11 Ben SoaresJAL-3772 Preference to NOT prompt to save remotely...
2023-10-11 Ben SoaresJAL-4298 Added diagnostics and minor dimension changes...
2023-10-05 Ben SoaresJAL-4298 Fixed initial log level to see .jalview_proper...
2023-10-05 James ProcterMerge branch 'doc/JAL-4090_Release_2_11_3_0' into develop
2023-10-05 James ProcterJAL-4090 JAL-3858 paedocs
2023-10-03 Ben SoaresJAL-4001 Only use acquireDialogQueue and releaseDialogQ... bug/JAL-4001_fix_About_Jalview_not_appearing
2023-10-03 James ProcterJAL-4217 move CommandsTest to testTask3 involving struc...
2023-10-03 James ProcterMerge branch 'patch/JAL-4062_sort_and_merge_contiguousr...
2023-10-03 James ProcterJAL-4090 fix up release notes and what’s new (inc remov...
2023-10-03 James ProcterMerge branch 'develop' into doc/JAL-4090_Release_2_11_3_0
2023-10-03 James ProcterJAL-4061 JAL-4062 update find box image and docs in...
2023-10-03 James ProcterMerge branch 'develop' into doc/JAL-4090_Release_2_11_3_0
2023-10-03 James ProcterMerge branch 'bug/JAL-244_interactingpngexportnotwysiwi...
2023-10-03 James ProcterJAL-4090 tweak pae doc
2023-10-02 jprocterJAL-4090 more JAL-3858 docs
2023-10-02 jprocterMerge branch 'develop' into doc/JAL-4090_Release_2_11_3_0
2023-10-01 James ProcterJAL-4090 JAL-3855 updated figure and doc.. a little bug/JAL-244_interactingpngexportnotwysiwig
2023-10-01 James ProcterJAL-244 ensure background is completely filled with...
2023-10-01 James ProcterJAL-4090 JAL-4291 disable failing test and note as...
2023-10-01 James ProcterJAL-244 attempt to fix broken test - still needs to...
2023-10-01 James ProcterJAL-244 export image with full width IDs regardless...
2023-10-01 James ProcterJAL-244 JAL-4091 allow calculation of label id width...
2023-10-01 James ProcterJAL-244 JAL-4091 FIXME for JAL-3362 patch testCalculate...
2023-10-01 James ProcterJAL-4160 update args used in test suite for new CLI...
2023-09-29 James ProcterMerge branch 'bug/JAL-244_interactingpngexportnotwysiwi...
2023-09-29 James ProcterJAL-629 JAL-4265 JAL-4286 report the filename for the...
2023-09-29 James ProcterJAL-4090 JAL-629 FER1+SPIOL -> FER1_SPIOL in command...
2023-09-29 James ProcterJAL-244 JAL-4090 use current IdWidth when exporting...
2023-09-29 James ProcterJAL-4090 figures in paematrix doc
2023-09-29 James ProcterJAL-4288 fix up gradle generated getdown launch jvl...
2023-09-29 James ProcterJAL-4090 fix url to new cli docs
2023-09-29 James ProcterJAL-4153 move JvCacheableInputBoxTest to testTask2
2023-09-29 James ProcterJAL-3858 fix check annotation row and column positionin...
2023-09-28 James ProcterJAL-4090 JAL-3855 figure showing PAEs for epas1 homolog...
2023-09-28 James ProcterJAL-1556 JAL-4090 colour by annotation options on annot...
2023-09-28 James ProcterJAL-3858 don’t divide if we only had one value to count
2023-09-28 James ProcterJAL-3858 check annotation row and column positioning...
2023-09-28 James ProcterJAL-3858 improved contactInterval computation and added...
2023-09-26 James ProcterJAL-3858 JAL-4090 pae matrix docs. WIP
2023-09-26 James ProcterJAL-3858 JAL-4090 avoid NPE when given out of bound...
2023-09-25 James ProcterJAL-3858 JAL-4090 PAE documentation..
2023-09-25 James ProcterJAL-3858 minimum value for a range is used to shade...
2023-09-25 James ProcterJAL-3858 javadoc and slightly revised green linear...
2023-09-25 James ProcterJAL-3858 report PAE range with sensible precision
2023-09-25 James ProcterJAL-4090 fix link...
2023-09-22 James ProcterJAL-4090 smaller associate PDB file panel image in...
2023-09-21 James ProcterJAL-4090 what’s new and additional help docs for JAL...
2023-09-21 James ProcterJAL-4090 JAL-4262 JAL-4265 release notes
2023-09-21 James ProcterJAL-1551 javadoc for mapUtils
2023-09-21 James ProcterJAL-3855 disable the AlphaFold DB entry in Sequence...
2023-09-21 James ProcterJAL-3858 JAL-3855 documentation for import and display...
2023-09-21 James ProcterMerge branch 'merge/JAL-4262+JAL-4265+JAL-4269+JAL...
2023-09-21 Ben SoaresJAL-4265 Use ColourUtils.parseColourString() for consis... merge/JAL-4262+JAL-4265+JAL-4269+JAL-4274+JAL-4277+JAL-4285
2023-09-21 Ben SoaresMerge branch 'develop' into merge/JAL-4262+JAL-4265...
2023-09-20 Ben SoaresJAL-4265 Use ColorUtils.parseColourString() and adjust...
2023-09-20 James ProcterJAL-4285 don’t say you are reporting warnings/errors...
2023-09-20 James ProcterJAL-4265 JAL-4286 reinstated explicit restoreSession...
2023-09-20 James ProcterJAL-4265 JAL-4267 added a ‘restoreSession’ StructureVie...
2023-09-20 James ProcterJAL-4195 JAL-1069 JAL-4160 errors in Cache should go...
2023-09-20 James ProcterMerge branch 'reviews/merge/JAL-4262+JAL-4265+JAL-4269...
2023-09-20 James ProcterJAL-4217 - try to invokeAndWait on Desktop.closeAll... reviews/merge/JAL-4262+JAL-4265+JAL-4269+JAL-4274+JAL-4277+JAL-4285
2023-09-20 James ProcterJAL-4274 fix test failure message typo
2023-09-20 James ProcterJAL-4265 bail early when attempting to export a view...
2023-09-20 James ProcterJAL-4265 JAL-4267 allow injection of custom commands...
2023-09-20 James ProcterJAL-4265 back out redundant ‘saveState’ and ‘restoreSta...
2023-09-20 Ben SoaresJAL-4265 Added saveState and restoreState to interface...
2023-09-20 Ben SoaresJAL-629 Explanation of \{m\} in case anyone actually...
2023-09-20 Ben SoaresJAL-629 Add link and example for BioJS image output
2023-09-20 Ben SoaresJAL-629 Make arguments appear correctly using all non...
2023-09-20 Ben SoaresJAL-629 Added/corrected/tidied documentation
2023-09-19 Ben SoaresJAL-629 JAL-4265 JAL-4269 Updated help Documentation
2023-09-19 Ben SoaresJAL-629 JAL-4265 JAL-4269 Updated help Documentation
2023-09-19 Ben SoaresJAL-4265 Change to use JmolCommands
2023-09-19 Ben SoaresJAL-629 Allow multiple structure images for multiple...
2023-09-16 Ben SoaresJAL-4250 Fixed blue arrows in drawStemAnnot()
2023-09-16 Ben SoaresJAL-629 Fix a test and omit an incorrect error message... improvement/JAL-4269_reduce_variants_of_common_subvalue_parameters
2023-09-16 Ben SoaresJAL-4265 Added --bgcolour for --structureimage output...
2023-09-16 Ben SoaresJAL-4269 Now using --width, --height, --scale for both...
2023-09-14 Ben SoaresMerge branch 'develop' into feature/JAL-4274_configurab...
2023-09-13 Ben SoaresJAL-4274 comments to help follow the tests feature/JAL-4274_configurable_bitmap_export_preferences
2023-09-13 Ben SoaresJAL-4274 Tests for BIS defaults and overrides
2023-09-13 Ben SoaresJAL-4274 Use Cache BITMAP_* if no other image restricti...
2023-09-13 Ben SoaresJAL-4262 Made deprecation warning properly modal bug/JAL-4277_dirname_substitution_always_absolute
2023-09-12 Ben SoaresJAL-4262 Allow HTML in the dialog box for link to CLI...
2023-09-12 Ben SoaresJAL-4277 No longer using getCanonicalPath() for parent...
2023-09-12 Ben SoaresJAL-4285 Better checkFiles processing. Better dialog.
2023-09-12 Ben SoaresJAL-629 updated tests
2023-09-12 Ben SoaresJAL-4285 JAL-4262 Added a scrollable dialog to display...
2023-09-11 Ben SoaresJAL-4001 corrected analytics message labels
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