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Merge branch 'develop' into bug/JAL-4059_update_swingJS_for_JalviewJS_2_11_2_and_2_11_3
[jalview.git]
/
src
/
jalview
/
ext
/
jmol
/
2023-11-03
James Procter
JAL-4090 JAL-1551 spotlessApply
tree
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commitdiff
2023-11-02
James Procter
Merge branch 'develop' into patch/JAL-3921_jmol_session...
tree
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commitdiff
2023-10-20
James Procter
JAL-4307 also report molecule name in tooltip for show...
feature/JAL-4307_hetatm_showhide
tree
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commitdiff
2023-10-20
James Procter
JAL-4307 some models return null for hetatm list
tree
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commitdiff
2023-10-19
James Procter
JAL-4307 View->Ligands submenu, implementation for...
tree
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commitdiff
2023-10-13
James Procter
JAL-4295 concatenate all mouseover highlights into...
tree
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commitdiff
2023-09-20
James Procter
JAL-4265 JAL-4267 added a ‘restoreSession’ StructureVie...
tree
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commitdiff
2023-09-20
James Procter
JAL-4265 back out redundant ‘saveState’ and ‘restoreSta...
tree
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commitdiff
2023-09-20
Ben Soares
JAL-4265 Added saveState and restoreState to interface...
tree
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commitdiff
2023-09-19
Ben Soares
JAL-4265 Change to use JmolCommands
tree
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commitdiff
2023-08-10
Ben Soares
JAL-629 Change all stdout and stderr output to use...
tree
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commitdiff
2023-06-30
James Procter
JAL-4216 compute size of annotation using start/end...
tree
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commitdiff
2023-05-19
James Procter
Merge branch 'develop' into features/JAL-4134_use_annot...
tree
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commitdiff
2023-05-01
James Procter
JAL-3858 report errors when trying to parse JSON to...
tree
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commitdiff
2023-04-19
Ben Soares
JAL-629 Now showing temp fac and secondary structure...
tree
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commitdiff
2023-03-25
Ben Soares
JAL-629 improvements to argparser toString. Improvement...
tree
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commitdiff
2023-03-17
Jim Procter
JAL-3921 allow Jmol saveState to be executed as evalScr...
patch/JAL-3921_jmol_session_save
tree
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commitdiff
2023-03-02
Ben Soares
JAL-629 Removal of unnecessary methods. Set pLTTD tempf...
tree
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commitdiff
2023-03-02
Ben Soares
JAL-629 Some refactoring to allow more flexible use...
tree
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commitdiff
2023-02-22
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
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commitdiff
2023-02-16
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
tree
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commitdiff
2023-02-03
James Procter
JAL-1551 remove temp file in src
tree
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commitdiff
2023-01-24
James Procter
JAL-629 need to delay call to AlignFile.parse() if...
tree
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commitdiff
2023-01-11
Ben Soares
JAL-629 refactoring TFType. Remove i18n identification...
tree
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commitdiff
2022-12-05
Ben Soares
JAL-629 implementation of --tempfac options
tree
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commitdiff
2022-10-28
Jim Procter
JAL-4086 commented out attempt to create measurement...
tree
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commitdiff
2022-10-28
Jim Procter
JAL-2961 centerViewOn command for structure viewers...
tree
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commitdiff
2022-10-27
Ben Soares
JAL-4083 don't need globalUseScriptWait after all,...
bug/JAL-4083_exceptions_for_multiple_residue_highlights_in_jmol
tree
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commitdiff
2022-10-27
Ben Soares
JAL-4083 only set globalUseScriptWait if needed
tree
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commitdiff
2022-10-27
Ben Soares
JAL-4083 Use jmolViewer.scriptWait instead of jmolViewe...
tree
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commitdiff
2022-10-17
Jim Procter
JAL-2349 JAL-3855 Integrate pAE retrieval in StructureF...
tree
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commitdiff
2022-10-15
Jim Procter
JAL-3855 import pAE when StructureSelectionManager...
tree
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commitdiff
2022-10-14
Jim Procter
Merge branch 'features/JAL-3895_alphafoldcolours' into...
tree
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commitdiff
2022-10-07
Jim Procter
Fix for JAL-4075 - don’t write a label in secondary...
tree
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commitdiff
2022-10-06
Jim Procter
JAL-1551 formatting
tree
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commitdiff
2022-10-06
Jim Procter
JAL-3895 alphafold colours via pluggable annotation...
tree
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commitdiff
2022-06-10
Jim Procter
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
tree
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commitdiff
2022-03-08
Jim Procter
JAL-3438 spotless for 2.11.2.0
tree
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commitdiff
2022-02-16
Jim Procter
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
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commitdiff
2022-02-15
Jim Procter
JAL-1761 backbone type parameter for configuring which...
tree
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commitdiff
2022-02-15
Jim Procter
JAL-1761 need to pass molecule type when generating...
tree
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commitdiff
2022-02-11
Jim Procter
JAL-3949 - refactor logging from jalview.bin.Cache...
tree
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commitdiff
2022-02-11
Ben Soares
JAL-3949 Complete new abstracted logging framework...
tree
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commitdiff
2021-09-21
Ben Soares
JAL-3691 automatic insertion of Locale.ROOT to toUpperC...
tree
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commitdiff
2021-09-20
Jim Procter
JAL-3829 make sure structure data type reflects actual...
tree
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commitdiff
2021-09-15
Ben Soares
JAL-3818 formatting
tree
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commitdiff
2021-09-15
gmungoc
JAL-3818 process Jmol callbacks in AWT thread
tree
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commitdiff
2021-09-14
Jim Procter
JAL-3855 detect an alphafold model and import its tempe...
tree
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commitdiff
2021-09-02
gmungoc
JAL-1842 remove redundant call to FeatureRenderer.featu...
tree
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commitdiff
2021-09-02
gmungoc
JAL-3509 better placement of call to notifyFeaturesChan...
tree
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commitdiff
2021-09-02
gmungoc
JAL-3509 coerce RESNUM to hidden (really) after fetchin...
tree
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commitdiff
2021-08-11
Jim Procter
Merge branch 'features/JAL-2349_matrixvis' into feature...
tree
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commitdiff
2021-02-11
gmungoc
JAL-3818 process Jmol callbacks in AWT thread
bug/JAL-3818_jmolDeadlock
tree
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commitdiff
2020-06-23
gmungoc
JAL-3518 pull up closeViewer() and external viewer...
tree
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commitdiff
2020-05-29
gmungoc
JAL-3551 null pointer defence while structure files...
feature/JAL-3551Pymol
tree
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commitdiff
2020-05-26
gmungoc
JAL-1761 pattern for structure viewer construction...
tree
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commitdiff
2020-05-21
gmungoc
JAL-3551 copy Jalview features to Pymol 'p' (with pull...
tree
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commitdiff
2020-05-20
gmungoc
JAL-3626 use Viewer.scriptWait() to send Jmol commands...
tree
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commitdiff
2020-05-19
gmungoc
Merge branch 'develop' into feature/JAL-3551Pymol
tree
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commitdiff
2020-05-15
gmungoc
JAL-3551 pull up Close Viewer dialog to base class
tree
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commitdiff
2020-05-12
gmungoc
JAL-3518 tidy method, remove obsolete comment
tree
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commitdiff
2020-05-12
gmungoc
JAL-3518 failsafe check for null Jmol filename while...
tree
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commitdiff
2020-05-11
gmungoc
JAL-3551 concatenate colour by sequence commands for...
tree
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commitdiff
2020-04-30
gmungoc
JAL-3551 save structure viewer session refactorings...
tree
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commitdiff
2020-03-16
gmungoc
JAL-3551 tidying, improved commands, fix Jmol model...
tree
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commitdiff
2020-03-13
gmungoc
JAL-3551 working proof of concept of Jalview driving...
tree
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commitdiff
2020-03-03
gmungoc
JAL-3158 superseded superposeStructures methods removed
tree
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commitdiff
2020-03-03
gmungoc
JAL-3518 more pull up / test coverage of structure...
tree
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commitdiff
2020-02-28
gmungoc
JAL-3518 basic refactoring / pull up of superposeStruct...
tree
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commitdiff
2020-02-21
gmungoc
JAL-2422 tidy of methods and parameters
tree
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commitdiff
2020-02-21
gmungoc
JAL-2422 general pull-up/removal of common or unused...
tree
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commitdiff
2020-02-20
gmungoc
JAL-2422 pull-up refactoring of structure commands...
tree
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commitdiff
2020-02-06
gmungoc
JAL-1842 remove redundant call to FeatureRenderer.featu...
tree
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commitdiff
2020-02-06
gmungoc
JAL-3509 better placement of call to notifyFeaturesChan...
tree
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commitdiff
2020-02-06
gmungoc
JAL-3509 coerce RESNUM to hidden (really) after fetchin...
tree
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commitdiff
2020-02-04
gmungoc
JAL-2422 pull up refactoring in preparation for Chimera...
tree
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commitdiff
2019-10-08
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2019-07-16
gmungoc
JAL-3210 Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-07-05
gmungoc
JAL-3187 initial refactoring towards peptide variant...
tree
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commitdiff
2019-06-18
Jim Procter
Merge branch 'features/JAL-2349_matrixvis' into merge...
tree
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commitdiff
2019-06-06
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-05-06
gmungoc
JAL-3244 delete obsolete method
tree
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commitdiff
2019-04-16
hansonr
localizes Thread colourby so that it does not cause...
tree
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commitdiff
2019-03-20
Ben Soares
JAL-3130 Lots of deprecation fixes. See utils/deprecat...
tree
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commitdiff
2019-02-19
gmungoc
JAL-3187 hacks to get peptide variant in to Jmol hover...
tree
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commitdiff
2018-12-25
hansonr
better Jmol help link
tree
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commitdiff
2018-12-06
gmungoc
Merge branch 'develop' into Jalview-BH/JAL-3026-JAL...
tree
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commitdiff
2018-12-06
gmungoc
JAL-1854 fix Checkstyle import violations
tree
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commitdiff
2018-11-14
gmungoc
JAL-3032 don't throw Exception to signal chain not...
tree
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commitdiff
2018-11-14
gmungoc
JAL-3152 holding patch for colour Jmol by sequence
tree
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commitdiff
2018-08-27
hansonr
JAL-3026 Jmol functioning; some issues
tree
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commitdiff
2018-08-24
hansonr
JAL-3026 GD#107,128,130,139 build-site.xml
tree
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commitdiff
2018-08-21
hansonr
mc_view references were MCview
tree
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commitdiff
2018-07-22
hansonr
allows for null Jmol viewer
tree
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commitdiff
2018-06-28
hansonr
JAL-3032 DND enabled; additional io changes for File...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 use StructureImportSettings singleton settings...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 allow JmolParser to be configured before parsi...
tree
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commitdiff
2018-05-04
Jim Procter
Merge branch 'bug/JAL-2899' into releases/Release_2_10_...
tree
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commitdiff
2018-05-01
Jim Procter
JAL-2899 colouring moved from SwingWorker to a backgrou...
tree
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commitdiff
2018-04-30
Jim Procter
Merge branch 'bug/JAL-2899' into releases/Release_2_10_...
tree
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commitdiff
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