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JAL-3518 removed unneeded override in ChimeraCommands
[jalview.git]
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src
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jalview
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ext
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2020-08-31
gmungoc
JAL-3518 removed unneeded override in ChimeraCommands
feature/JAL-3390hideUnmappedStructure
tree
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commitdiff
2020-06-29
gmungoc
JAL-3390 improved 'hide chain' commands
tree
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commitdiff
2020-06-29
gmungoc
Merge branch 'develop' into feature/JAL-3390hideUnmappe...
tree
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commitdiff
2020-06-28
gmungoc
JAL-3551 PyMOL command constants tidied
tree
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commitdiff
2020-06-28
gmungoc
JAL-3551 fit to window (zoom) command for PyMOL
tree
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commitdiff
2020-06-25
gmungoc
JAL-2010 unused prototype method removed
tree
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commitdiff
2020-06-25
gmungoc
JAL-3518 pull up [get|list]ResidueAttributes to Structu...
tree
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commitdiff
2020-06-23
gmungoc
JAL-3518 separation of ChimeraXManager, pull up of...
tree
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commitdiff
2020-06-23
gmungoc
JAL-3518 pull up closeViewer() and external viewer...
tree
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commitdiff
2020-06-09
gmungoc
JAL-3390 unit tests and command and menu refinements
tree
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commitdiff
2020-06-08
gmungoc
JAL-3390 obsolete classes/methods removed
tree
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commitdiff
2020-06-08
gmungoc
Merge branch 'develop' into feature/JAL-3390hideUnmappe...
tree
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commitdiff
2020-06-01
gmungoc
JAL-3518 more test coverage for structure commands
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
2020-05-28
gmungoc
JAL-3551 corrected Pymol open session command
tree
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commitdiff
2020-05-28
gmungoc
JAL-2422 correct ChimeraX save/open session commands...
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
2020-05-18
gmungoc
Merge branch 'Jalview-JS/develop' into develop
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
2020-05-11
gmungoc
JAL-2422 JAL-3551 viewer text/variables generalised...
tree
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commitdiff
2020-05-11
gmungoc
JAL-2422 restore saved ChimeraX session from project
tree
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commitdiff
2020-04-30
gmungoc
JAL-3551 save structure viewer session refactorings...
tree
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commitdiff
2020-04-30
gmungoc
JAL-3551 tidied error handling for HTTP request
tree
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commitdiff
2020-04-25
gmungoc
Merge branch 'develop' into feature/JAL-3551Pymol
tree
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commitdiff
2020-04-21
Jim Procter
JAL-3407 add GPL license to Jalview source files
tree
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commitdiff
2020-03-31
gmungoc
JAL-3210 JAL-3130 merge changes to JSON processing
tree
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commitdiff
2020-03-30
gmungoc
JAL-3210 debug logging commented out
tree
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commitdiff
2020-03-30
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2020-03-16
gmungoc
JAL-3551 tidying, improved commands, fix Jmol model...
tree
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commitdiff
2020-03-16
gmungoc
JAL-3551 the correct PyMOL colour by chain command
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
2020-03-09
gmungoc
Merge branch 'develop' into feature/JAL-2422ChimeraX
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
2020-02-29
gmungoc
JAL-3518 correct override for ChimeraX colour by residues
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-3518 more extraction of ChimeraX commands as overrides
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
2020-02-04
gmungoc
JAL-2422 pull up refactoring in preparation for Chimera...
tree
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commitdiff
2020-01-31
gmungoc
JAL-2422 temporary hacks removed; use hex colours for...
tree
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commitdiff
2020-01-30
gmungoc
JAL-2422 save/restore ChimeraX session
tree
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commitdiff
2020-01-28
gmungoc
JAL-2422 ChimeraX added to Preferences
tree
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commitdiff
2020-01-14
gmungoc
JAL-2422 proof of concept adaptations for ChimeraX...
tree
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commitdiff
2019-12-13
gmungoc
JAL-2422 'label' command to highlight ChimeraX residue...
tree
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commitdiff
2019-12-13
gmungoc
JAL-2422 write Jalview features to ChimeraX via command...
tree
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commitdiff
2019-12-13
gmungoc
JAL-2422 basic proof of concept of ChimeraX opened...
tree
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commitdiff
2019-10-08
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2019-08-22
gmungoc
JAL-3121 round trip GFF attributes including map-valued...
tree
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commitdiff
2019-08-21
gmungoc
JAL-3390 unit tests for buildShowStructuresCommand...
tree
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commitdiff
2019-08-21
gmungoc
JAL-3390 JAL-3400 revised commands to show structure...
tree
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commitdiff
2019-08-10
gmungoc
JAL-3404 fix up test compilation errors
tree
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commitdiff
2019-08-10
gmungoc
JAL-3404 explicit getModelForPdbFile lookup
tree
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commitdiff
2019-08-09
gmungoc
JAL-3990 fix typo in showStructures command for Chimera
tree
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commitdiff
2019-08-09
gmungoc
JAL-3390 refactoring tidy of colourBySequence call...
tree
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commitdiff
2019-08-09
gmungoc
JAL-3390 move StructureCommands to utils package
tree
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commitdiff
2019-08-08
gmungoc
JAL-3390 improved Jmol colour by sequence command ...
tree
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commitdiff
2019-08-08
gmungoc
JAL-3403 Fit To Window menu item for Jmol
tree
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commitdiff
2019-08-08
gmungoc
JAL-3390 StructureCommands atomspec helper, corrected...
tree
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commitdiff
2019-08-08
gmungoc
JAL-3400 include sequence name in View | Show Chain...
tree
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commitdiff
2019-08-07
gmungoc
JAL-3390 showSelectedChains pulled up to base class...
tree
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commitdiff
2019-08-07
gmungoc
Merge branch 'develop' into feature/JAL-3390hideUnmappe...
tree
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commitdiff
2019-08-06
gmungoc
JAL-3390 first pass refactoring for JalviewJmolBinding...
tree
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commitdiff
2019-08-06
gmungoc
JAL-3390 pull up of getShownResidues() to AAStructureBi...
tree
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commitdiff
2019-08-05
gmungoc
JAL-3390 redraw structures if alignment only and hidden...
tree
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commitdiff
2019-08-05
gmungoc
JAL-3390 new View menu option to hide hidden regions...
tree
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commitdiff
2019-08-05
gmungoc
JAL-3390 Chimera showStructures() respects visible...
tree
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commitdiff
2019-08-02
gmungoc
JAL-3390 first draft of showing only visible alignment...
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
2019-06-14
gmungoc
JAL-3302 transfer visible 'linked' features to Chimera
tree
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commitdiff
2019-06-11
gmungoc
Merge branch 'develop' into feature/JAL-3187linkedFeatures
tree
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commitdiff
2019-06-11
gmungoc
JAL-3143 also parse "phase" from JSON response if present
tree
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commitdiff
2019-06-07
gmungoc
Merge branch 'develop' into feature/JAL-3187linkedFeatures
tree
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commitdiff
2019-06-07
gmungoc
JAL-2738 use GeneLocus extends DBRefEntry to hold chrom...
tree
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commitdiff
2019-06-06
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-05-31
Ben Soares
JAL-3247 Adjusted Uninstall Old Jalview.app to just...
tree
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commitdiff
2019-05-29
gmungoc
JAL-2738 accept .csi, default to GRCh37:homo_sapiens...
tree
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commitdiff
2019-05-06
gmungoc
JAL-3244 delete obsolete method
tree
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commitdiff
2019-04-26
gmungoc
JAL-2743 class Javadoc
tree
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commitdiff
2019-04-23
Jim Procter
Merge branch 'develop' into bug/JAL-3224_getdown_change...
tree
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commitdiff
2019-04-18
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2019-04-18
gmungoc
JAL-3193 dbSource always "ENSEMBL"
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
2019-04-15
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2019-04-11
Jim Procter
Merge branch 'develop' into task/JAL-3130_Java_11_inves...
tree
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commitdiff
2019-04-10
gmungoc
JAL-3193 rest.ensemblgenomes.org merged to rest.ensembl.org
tree
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commitdiff
2019-04-10
gmungoc
JAL-3018 REST version updated to 10.0
tree
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commitdiff
2019-04-04
Ben Soares
JAL-3130 trying to be Java 1.8 source compatible -...
tree
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commitdiff
2019-04-03
hansonr
replacing @j2sNative with @j2sIgnore where appropriate...
tree
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commitdiff
2019-04-01
gmungoc
JAL-3032 use small example Ensembl gene for JalviewJS
tree
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commitdiff
2019-04-01
hansonr
JSON refactoring of a few methods; fixing JavaScript...
tree
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commitdiff
2019-03-21
Ben Soares
JAL-3130 Replaced deprecated Class.newInstance() with...
tree
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commitdiff
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