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Merge branch 'feature/JAL-4159_pasimap' into spike/JAL-4159_pasimap_2113_series
2024-05-14
Ben Soares
JAL-4217 Upped the main testTask0 timeout to 15 minutes...
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2024-05-02
Ben Soares
JAL-4217 Sensible timeout for testTask0
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2024-05-02
Ben Soares
JAL-4217 Added a timeout for testTasks. If timeout...
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2024-01-23
Ben Soares
JAL-4367 Limit right and top adjustments
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2024-01-23
Ben Soares
JAL-4290 Fix image comparison between gui and headless...
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2024-01-23
Ben Soares
JAL-4290 fixed tests
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2024-01-23
Ben Soares
Merge branch 'bug/JAL-4353_cannot_output_multiple_different_...
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2024-01-23
Ben Soares
Merge branch 'develop' into bug/JAL-4353_cannot_output_multi...
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2024-01-19
Ben Soares
JAL-4373 Setting the jvmmempc and jvmmemmax strings...
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2024-01-19
Ben Soares
JAL-4373 Fix Main-Class and other attribute settings...
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2024-01-05
Ben Soares
JAL-4368 Only set a colour scheme if --colour is given...
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2023-12-19
Ben Soares
JAL-4290 Fixed one test
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2023-12-18
Ben Soares
JAL-4290 not quite working tests
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2023-12-18
Ben Soares
JAL-4290 incorrect usage of main()
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2023-12-15
Ben Soares
Merge branch 'bug/JAL-4290_headless_alignment_export_with_st...
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2023-12-15
Ben Soares
JAL-4290 Add method to allow for specific settings...
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2023-12-15
Ben Soares
JAL-4290 Set structureSelectionManager settings more...
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2023-12-15
Ben Soares
JAL-4290 Move some annotation visibility settings to...
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2023-12-12
Ben Soares
JAL-4353 bigger tighter test
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2023-12-12
Ben Soares
Merge branch 'bug/JAL-4353_cannot_output_multiple_different_...
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2023-12-12
Ben Soares
JAL-4353 helper method and test for primary/secondary...
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2023-12-06
Ben Soares
JAL-4353 re-used random color code
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2023-12-06
Ben Soares
JAL-4353 Preserve the user given 'linkedId' with ArgValue...
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2023-12-06
Ben Soares
JAL-4353 Add a 'random' colour to produce a random...
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2023-12-05
Ben Soares
JAL-4353 Add secondary Types for Args, for STRUCTUREIMAGE...
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2023-12-01
Ben Soares
JAL-4243 Updated bio.tools record and JSON (version...
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2023-11-30
Ben Soares
JAL-4344 careful application of -Djava.awt.headless...
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2023-11-20
Ben Soares
JAL-4348 Add newer versions of Chimera and ChimeraX...
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2023-11-16
Ben Soares
JAL-4243 Updated bio.tools record for 2.11.3.0
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2023-11-16
Ben Soares
JAL-4340 Change launch scripts to be xresources to...
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2023-11-09
Ben Soares
JAL-4090 minor missing word correction to whatsnew
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2023-10-31
Ben Soares
JAL-4319 Downgrade shadow(Jar) module to stop triggering...
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2023-10-25
Ben Soares
Merge branch 'develop' into bug/JAL-4289_group_boundary_not_...
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2023-10-20
Ben Soares
JAL-4298 Update help docs to reflect Groovy changes
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2023-10-20
Ben Soares
JAL-4298 Remove a stray return in the processGroovyScript...
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2023-10-20
Ben Soares
JAL-4298 another implicated line
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2023-10-19
Ben Soares
Merge branch 'patch/JAL-4298_synchronize_consoledoc...
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2023-10-19
Ben Soares
JAL-629 Fix --nodebug turning off debug mode from properties
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2023-10-19
Ben Soares
JAL-4298 comment markers
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2023-10-19
Ben Soares
Merge branch 'improvement/JAL-3783_upgrade_to_groovy...
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2023-10-19
Ben Soares
JAL-4305 Isolate and unify the Jalview object from...
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2023-10-19
Ben Soares
Merge branch 'improvement/JAL-3783_upgrade_to_groovy...
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2023-10-18
Ben Soares
JAL-629 Run non-alignframe linked groovy scripts. ...
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2023-10-18
Ben Soares
JAL-4262 Fix the nonblockingdialog so that Jalview...
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2023-10-13
Ben Soares
JAL-3783 Updated groovy jars. Requires javaparser...
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2023-10-13
Ben Soares
JAL-3783 Updated build process to allow multiple groovy...
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2023-10-12
Ben Soares
JAL-3772 Fix the logic of prompt to save URL loaded...
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2023-10-12
Ben Soares
JAL-629 null check and neatening code
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2023-10-11
Ben Soares
JAL-629 correct a timeout. Correct passing html flag.
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2023-10-11
Ben Soares
JAL-629 Add a timeout to modal dialogs for command...
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2023-10-11
Ben Soares
JAL-629 Change getdown not to add -open argument
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2023-10-11
Ben Soares
JAL-629 Remove argfiles from the hashset of used argfiles...
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2023-10-11
Ben Soares
JAL-3772 Preference to NOT prompt to save remotely...
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2023-10-11
Ben Soares
JAL-4298 Added diagnostics and minor dimension changes...
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2023-10-05
Ben Soares
JAL-4298 Fixed initial log level to see .jalview_properties...
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2023-10-03
Ben Soares
JAL-4001 Only use acquireDialogQueue and releaseDialogQueue...
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2023-10-03
Ben Soares
Merge branch 'develop' into bug/JAL-4289_group_boundary_not_...
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2023-10-02
Ben Soares
JAL-4289 In fastPaint(), don't render one more than...
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2023-09-21
Ben Soares
JAL-4265 Use ColourUtils.parseColourString() for consistency...
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2023-09-21
Ben Soares
Merge branch 'develop' into merge/JAL-4262+JAL-4265...
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2023-09-20
Ben Soares
JAL-4265 Use ColorUtils.parseColourString() and adjust...
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2023-09-20
Ben Soares
JAL-4265 Added saveState and restoreState to interface...
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2023-09-20
Ben Soares
JAL-629 Explanation of \{m\} in case anyone actually...
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2023-09-20
Ben Soares
JAL-629 Add link and example for BioJS image output
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2023-09-20
Ben Soares
JAL-629 Make arguments appear correctly using all non...
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2023-09-20
Ben Soares
JAL-629 Added/corrected/tidied documentation
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2023-09-19
Ben Soares
JAL-629 JAL-4265 JAL-4269 Updated help Documentation
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2023-09-19
Ben Soares
JAL-629 JAL-4265 JAL-4269 Updated help Documentation
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2023-09-19
Ben Soares
JAL-4265 Change to use JmolCommands
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2023-09-19
Ben Soares
JAL-629 Allow multiple structure images for multiple...
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2023-09-16
Ben Soares
JAL-4250 Fixed blue arrows in drawStemAnnot()
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2023-09-16
Ben Soares
JAL-629 Fix a test and omit an incorrect error message...
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2023-09-16
Ben Soares
JAL-4265 Added --bgcolour for --structureimage output...
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2023-09-16
Ben Soares
JAL-4269 Now using --width, --height, --scale for both...
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2023-09-14
Ben Soares
Merge branch 'develop' into feature/JAL-4274_configurable_bi...
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2023-09-13
Ben Soares
JAL-4274 comments to help follow the tests
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2023-09-13
Ben Soares
JAL-4274 Tests for BIS defaults and overrides
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2023-09-13
Ben Soares
JAL-4274 Use Cache BITMAP_* if no other image restrictions...
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2023-09-13
Ben Soares
JAL-4262 Made deprecation warning properly modal
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2023-09-12
Ben Soares
JAL-4262 Allow HTML in the dialog box for link to CLI...
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2023-09-12
Ben Soares
JAL-4277 No longer using getCanonicalPath() for parent...
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2023-09-12
Ben Soares
JAL-4285 Better checkFiles processing. Better dialog.
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2023-09-12
Ben Soares
JAL-629 updated tests
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2023-09-12
Ben Soares
JAL-4285 JAL-4262 Added a scrollable dialog to display...
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2023-09-11
Ben Soares
JAL-4001 corrected analytics message labels
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2023-09-11
Ben Soares
Merge branch 'improvement/JAL-4262_deprecation_warning_when_...
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2023-09-11
Ben Soares
JAL-4277 --mkdirs with cautious refusal for paths with ..
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2023-09-11
Ben Soares
JAL-4284 JAL-4285 Deal with output files/images consistently...
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2023-09-08
Ben Soares
JAL-4262 Make an excepetion for STDOUT filename in...
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2023-09-08
Ben Soares
Merge branch 'bug/JAL-4277_dirname_substitution_always_absol...
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2023-09-08
Ben Soares
JAL-4262 Dialog for GUI and WARN for CLI of old style...
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2023-09-07
Ben Soares
Merge branch 'develop' into bug/JAL-4277_dirname_substitutio...
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2023-09-07
Ben Soares
JAL-4277 fixed and improved tests
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2023-09-07
Ben Soares
JAL-4277 Corrected choice of all or last opened linkedIds...
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2023-09-07
Ben Soares
JAL-629 Change names of Opt.ALLOWALL to Opt.ALLOWMULTIID...
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2023-09-02
Ben Soares
Merge branch 'feature/JAL-629_--output_-_means_output_to_STD...
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2023-09-02
Ben Soares
JAL-629 Add accessors for argParser and bootstrapArgs
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2023-09-01
Ben Soares
Merge branch 'feature/JAL-629_--output_-_means_output_to_STD...
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2023-09-01
Ben Soares
JAL-629 Save structure frames in project files when...
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2023-09-01
Ben Soares
Merge branch 'feature/JAL-629_--output_-_means_output_to_STD...
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