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Merge branch 'feature/JAL-3855_ebi_alphafold_import' into features/JAL-2349_matrixvis...
[jalview.git]
/
src
/
jalview
/
2020-08-04
Ben Soares
JAL-3477 Added -help text for jvmmempc and jvmmemmax...
tree
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commitdiff
2020-08-03
Jim Procter
Merge branch 'bug/JAL-2983negativeSliderMin' into develop
tree
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commitdiff
2020-07-29
Jim Procter
JAL-3371 JAL-2983 don't modify 'extent' of slider ...
tree
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commitdiff
2020-07-28
Jim Procter
Merge branch 'feature/JAL-3615gzipXfam' into develop
tree
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commitdiff
2020-07-28
Jim Procter
JAL-3615 JAL-2656 missing import after cherrypick
tree
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commitdiff
2020-07-28
Jim Procter
JAL-2656 recognise non-HTTP URI input streams as gzippe...
tree
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commitdiff
2020-07-28
Jim Procter
JAL-2656 recognise Gzipped file input streams by their...
tree
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commitdiff
2020-07-27
Jim Procter
JAL-3697 show total number of features not shown
tree
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commitdiff
2020-07-27
Jim Procter
JAL-3696 log the error message from the exception to...
tree
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commitdiff
2020-07-14
gmungoc
JAL-1421 last change tidied up properly
tree
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commitdiff
2020-07-14
gmungoc
JAL-1421 types added to nameHash and nodeHash maps
tree
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commitdiff
2020-07-14
gmungoc
JAL-3597 additional references nulled, bug in test...
tree
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commitdiff
2020-07-07
Ben Soares
JAL-3608 Changes from code review CR-JAL-236
tree
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commitdiff
2020-07-07
gmungoc
JAL-1424 streamlined message checker, corrected applet...
tree
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commitdiff
2020-07-06
gmungoc
JAL-3311 JAL-3141 JAL-3144 tidying obsolete message...
tree
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commitdiff
2020-07-02
gmungoc
JAL-2656 JAL-3615 check response headers to test for...
tree
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commitdiff
2020-07-02
gmungoc
JAL-3615 used gzip endpoints for Pfam and Rfam
tree
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commitdiff
2020-06-29
Jim Procter
Merge branch 'develop' of source.jalview.org/git/jalvie...
tree
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commitdiff
2020-06-29
Jim Procter
JAL-3493 clear search highlights when escape/deselect all
tree
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commitdiff
2020-06-29
gmungoc
JAL-3674 more finessed asynchronous structure commands
tree
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commitdiff
2020-06-29
gmungoc
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2020-06-29
gmungoc
JAL-3518 corrected pulled up focusView() command
tree
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commitdiff
2020-06-29
gmungoc
JAL-3518 corrected action on pulled up closeViewer()
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
2020-06-26
Jim Procter
JAL-3673 make sure font metrics are updated if dealing...
tree
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commitdiff
2020-06-26
Jim Procter
JAL-3518 fix highlighting in Jalview for selections...
tree
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commitdiff
2020-06-26
Jim Procter
JAL-3672 more efficient when debug not enabled
tree
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commitdiff
2020-06-26
Jim Procter
JAL-3671 hardwire log4j.root logger to INFO to supress...
tree
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commitdiff
2020-06-26
gmungoc
JAL-3518 tidy up asynchronous structure command execution
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
2020-06-01
gmungoc
JAL-3518 more test coverage for structure commands
tree
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commitdiff
2020-05-29
gmungoc
JAL-2422 test updated
tree
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commitdiff
2020-05-29
gmungoc
Merge branch 'feature/JAL-3551Pymol' into develop
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-3624 log when SIFTS mapping fails
tree
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commitdiff
2020-05-26
gmungoc
Merge branch 'feature/JAL-3624siftsInJS' into develop
tree
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commitdiff
2020-05-26
gmungoc
JAL-1761 pattern for structure viewer construction...
tree
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commitdiff
2020-05-24
Jim Procter
JAL-3407 redact Java 8 incompatible '<>' with anonymous...
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
JAL-3621 corrected sequence feature sort and test
tree
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commitdiff
2020-05-19
gmungoc
Merge branch 'develop' into feature/JAL-3551Pymol
tree
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commitdiff
2020-05-19
gmungoc
JAL-3624 use temp file for SIFT download in JS, correct...
feature/JAL-3624siftsInJS
tree
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commitdiff
2020-05-18
gmungoc
JAL-3463 avoid Thread.sleep() as not supported in SwingJS
tree
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commitdiff
2020-05-18
gmungoc
JAL-3621 update to intervalstore v1.1
tree
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commitdiff
2020-05-18
gmungoc
Merge branch 'Jalview-JS/develop' into develop
tree
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commitdiff
2020-05-18
gmungoc
JAL-3613 remove debug code committed in error
tree
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commitdiff
2020-05-15
gmungoc
JAL-3619 default silently to Jmol if viewerType absent...
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
2020-05-15
gmungoc
Merge branch 'feature/JAL-3551Pymol' into feature/JAL...
tree
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commitdiff
2020-05-15
gmungoc
JAL-3551 raise label on ('highlight') structure residue...
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
2020-05-04
Ben Soares
JAL-3608 streamlined LaF methods and allow specificying...
tree
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commitdiff
2020-05-03
Ben Soares
JAL-3608 also look at user pref PREFERRED_LAF
tree
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commitdiff
2020-05-01
gmungoc
JAL-3613 check sequence overlap when matching search...
tree
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commitdiff
2020-05-01
Ben Soares
JAL-3608 Now reporting the actual LookAndFeel in Java...
tree
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commitdiff
2020-05-01
Ben Soares
JAL-3608 Added java builtin NimbusLookAndFeel option...
tree
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commitdiff
2020-04-30
Ben Soares
JAL-3608 Enforcing MetalLookAndFeel as default on linux...
tree
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commitdiff
2020-04-30
Ben Soares
JAL-3608 Added 'metal' option for laf property
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
2020-04-23
soares
JAL-3608 JAL-3416 Added a 'gtk' option. Not currently...
tree
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commitdiff
2020-04-22
soares
JAL-3608 saved in Eclipse with auto formatting
tree
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commitdiff
2020-04-22
Ben Soares
JAL-3608 Added CrossPlatform LaF and made configurable...
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
2020-04-21
Jim Procter
Merge branch 'bug/JAL-3574filterByPOS' into documentati...
tree
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commitdiff
2020-04-21
Jim Procter
Merge branch 'bug/JAL-3567virtualFeatureCoordinates...
tree
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commitdiff
2020-04-21
Jim Procter
JAL-367 code tidy
tree
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commitdiff
2020-04-21
Jim Procter
JAL-3567 translated rather than imputed peptide
tree
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commitdiff
2020-04-21
gmungoc
JAL-3603 load annotation file from RELATIVE_URL in...
tree
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commitdiff
2020-04-17
gmungoc
JAL-3567 unit tests for linked feature tooltips
tree
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commitdiff
2020-04-16
BobHanson
JAL-3587 Load Project bug
tree
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commitdiff
2020-04-16
gmungoc
JAL-3567 adjust layout of linked feature report, unit...
tree
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commitdiff
2020-04-16
gmungoc
JAL-3567 added 'imputed by Jalview' to protein conseque...
tree
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commitdiff
2020-04-16
gmungoc
JAL-3567 report mapped location for virtual features...
tree
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commitdiff
2020-04-14
Jim Procter
Merge branch 'bug/JAL-3529_uniprotidsinstockholm' into...
tree
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commitdiff
2020-04-14
gmungoc
JAL-3583 remove debug logging, Javadoc added
tree
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commitdiff
2020-04-13
gmungoc
JAL-3574 Matcher with integer/long value pattern (e...
tree
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commitdiff
2020-04-12
gmungoc
JAL-3596 change redacted
tree
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commitdiff
2020-04-12
gmungoc
JAL-3596 don't draw text over features if Show Text...
tree
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commitdiff
2020-04-12
gmungoc
JAL-3583 consistent last[Formatted]Tooltip, show once...
tree
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commitdiff
2020-04-07
soares
merge from develop: Most of the changes
tree
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commitdiff
2020-04-07
BobHanson
JAL-3589 (old Platform) fix for Jalvew-JS/develop only.
tree
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commitdiff
2020-04-07
gmungoc
JAL-3210 fudge for JalviewJS to avoid IntervalStore...
tree
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commitdiff
2020-04-06
Jim Procter
JAL-3407 redact java 8 incompatible type inference
tree
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commitdiff
2020-04-06
gmungoc
JAL-3581 no hidden sequence marker if hidden markers...
tree
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commitdiff
2020-04-06
gmungoc
JAL-3581 no hidden sequence marker if hidden markers...
tree
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commitdiff
2020-04-06
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2020-04-06
gmungoc
JAL-3579 no Feature Editor if features not shown
tree
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commitdiff
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