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Merge branch 'develop' into features/r2_11_2_alphafold/JAL-629
[jalview.git]
/
src
/
jalview
/
2022-10-28
Jim Procter
JAL-4089 use column selection to superpose if 4 or...
tree
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commitdiff
2022-10-28
Jim Procter
JAL-2961 centerViewOn command for structure viewers...
tree
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commitdiff
2022-10-28
Jim Procter
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
tree
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commitdiff
2022-10-28
Ben Soares
JAL-1988 JAL-3772 Fixed wait between waitDialog appeara...
tree
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commitdiff
2022-10-27
Ben Soares
JAL-1988 Allow generic Container object in JvOptionPane...
tree
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commitdiff
2022-10-27
Ben Soares
Merge branch 'develop' into bug/JAL-1988_JAL-3772_impro...
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
2022-10-26
Jim Procter
JAL-4086 quick and dirty mouseovers on ruler highlighti...
tree
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commitdiff
2022-10-26
Ben Soares
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
tree
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commitdiff
2022-10-25
Ben Soares
JAL-3772 silly NPE error fixed
tree
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commitdiff
2022-10-25
Ben Soares
JAL-3416 Making FlatLaF default for macs due to a probl...
tree
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commitdiff
2022-10-24
Ben Soares
JAL-1988 JAL-3772 wait timer working first time but...
tree
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commitdiff
2022-10-24
Ben Soares
JAL-1988 JAL-3772 Non-blocking modal dialogs for unsave...
tree
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commitdiff
2022-10-22
Jim Procter
JAL-2349 JAL-3855 highlight residues associated with...
tree
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commitdiff
2022-10-21
Jim Procter
JAL-2349 JAL-3855 fix failing tests
tree
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commitdiff
2022-10-21
Jim Procter
JAL-2349 JAL-3855 experiment masking hidden columns...
tree
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commitdiff
2022-10-21
Jim Procter
JAL-4033 - heuristic threshold for pAE matrix - mark...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 formatting/pick correct exception
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 JAL-3855 off by one and daft return
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 avoid div-by-zero when annotation height is...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 JAL-3855 adapt renderer for AlignmentI.getCont...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 JAL-3855 ContactListI.getPosition() to recover...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 JAL-3855 experimenting with filtering columns...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-3855 JAL-2349 AlignmentI.getContactList takes care...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-4033 fix drag selections and distinguish row/column...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 (still buggy) interactive selection - time...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 tooltip reports value from contact range
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 adjusted range calculation to be inclusive...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 debugged click/drag and added yellow rubber...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-2349 JAL-3855 - interactive point-wise row/column...
tree
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commitdiff
2022-10-20
Jim Procter
JAL-3855 RGB colours from the alphafold paE scale.
tree
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commitdiff
2022-10-19
Jim Procter
JAL-2349 JAL-4033 refactored contact matrix geom calc...
tree
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commitdiff
2022-10-17
Jim Procter
JAL-2349 JAL-3855 column selection highlighting
tree
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commitdiff
2022-10-17
Jim Procter
JAL-3855 bump AF version to 3 - keep contact renderer...
tree
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commitdiff
2022-10-17
Jim Procter
JAL-1551 formatting
tree
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commitdiff
2022-10-17
Jim Procter
JAL-3855 report download errors as errors!
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-2349 reusable contact map holder for SequenceI...
tree
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commitdiff
2022-10-15
Jim Procter
JAL-3855 2349 TODO
tree
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commitdiff
2022-10-15
Jim Procter
JAL-3855 import pAE when StructureSelectionManager...
tree
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commitdiff
2022-10-15
Jim Procter
JAL-3855 pAE v2 import
tree
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commitdiff
2022-10-14
Jim Procter
JAL-3855 refactor the pAE retrieval code so it can...
tree
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commitdiff
2022-10-14
Jim Procter
Merge branch 'features/JAL-3895_alphafoldcolours' into...
tree
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commitdiff
2022-10-14
Jim Procter
Merge branch 'develop' into features/JAL-3895_alphafold...
features/JAL-3895_alphafoldcolours
tree
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commitdiff
2022-10-11
Jim Procter
JAL-4073 fix PEBCAK failure
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
stable url for PFAM retrieval via interpro api :) JAL...
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
2022-10-06
Jim Procter
JAL-1551 formatting
tree
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commitdiff
2022-10-06
Jim Procter
JAL-4073 Pfam retrieval now works via a template includ...
tree
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commitdiff
2022-10-06
Jim Procter
Patch for JAL-4074 - any content ending in ‘gzip’ recog...
tree
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commitdiff
2022-09-29
Ben Soares
Merge branch 'develop' into bug/JAL-1988_JAL-3772_impro...
tree
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commitdiff
2022-09-26
Ben Soares
JAL-1988 JAL-3772 linked undostack to saved changes...
tree
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commitdiff
2022-09-23
Ben Soares
JAL-1988 JAL-3772 Quit confirmation dialog boxes with...
tree
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commitdiff
2022-09-23
Ben Soares
JAL-3676 extra information about jalview_properties...
tree
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commitdiff
2022-09-23
Ben Soares
JAL-1988 property based fake delay whilst saving projec...
tree
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commitdiff
2022-09-16
Jim Procter
JAL-4062 copy highlighted region docs, new Alignment...
tree
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commitdiff
2022-09-15
Jim Procter
JAL-4061 use alignment panel’s feature renderer to...
tree
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commitdiff
2022-09-15
Jim Procter
JAL-4061 support incremental search of features
tree
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commitdiff
2022-09-15
Jim Procter
JAL-4061 tests, bugfixes and TODOs for matching feature...
tree
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commitdiff
2022-09-15
Jim Procter
JAL-4062 avc operation and model method for copying...
tree
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commitdiff
2022-09-15
Jim Procter
Merge branch 'develop' into features/JAL-4061_and_JAL...
tree
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commitdiff
2022-09-14
Jim Procter
Merge branch 'bug/JAL-3612_overviewFeatureOrdering...
tree
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commitdiff
2022-09-14
Jim Procter
JAL-4061 JAL-4062 button in Find dialog to copy highlig...
tree
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commitdiff
2022-09-14
Jim Procter
JAL-4061 JAL-4062 Find can now search features
tree
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commitdiff
2022-09-02
Ben Soares
JAL-1988 Added a saves in progress check for quit
tree
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commitdiff
2022-08-31
Ben Soares
JAL-1988 added a saveInProgress stack to BackupFiles
tree
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commitdiff
2022-08-08
Jim Procter
JAL-4046 JAL-3993 imports reformatting
tree
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commitdiff
2022-08-08
Jim Procter
JAL-4046 JAL-3993 patch for 2.11.2.4 release
tree
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commitdiff
2022-08-08
Jim Procter
Merge branch 'task/JAL-3991_check_actual_JAVA_VERSION_a...
tree
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commitdiff
2022-08-08
Jim Procter
Merge branch 'improvement/JAL-4014_gecos_colour_schemes...
tree
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commitdiff
2022-08-08
Jim Procter
Merge branch 'patch/JAL-4036_uniprot_fts_legacy_endpoin...
tree
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commitdiff
2022-08-08
Jim Procter
JAL-4034 show the loading spinner when switching betwee...
tree
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commitdiff
2022-08-08
Jim Procter
Merge branch 'features/JAL-4034_improve_3dbeacons_butto...
tree
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commitdiff
2022-07-25
Ben Soares
JAL-4036 moved a comment block
tree
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commitdiff
2022-07-25
Ben Soares
JAL-4034 button looks better also on other OSes with...
tree
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commitdiff
2022-07-24
Ben Soares
JAL-4034 add round corners to 3DB confirmation button...
tree
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commitdiff
2022-07-22
Ben Soares
JAL-4036 Changes made from code review CR-JAL-265
tree
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commitdiff
2022-07-22
Ben Soares
JAL-4036 Add getDbName to the GFTSPanelI and add an...
tree
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commitdiff
2022-07-22
Ben Soares
JAL-4036 removing the query field code from the dropdow...
tree
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commitdiff
2022-07-21
Ben Soares
JAL-4036 Don't autosearch changing index when autosearc...
tree
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commitdiff
2022-07-21
Ben Soares
JAL-4036 add search fieldname to dropdown list
tree
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commitdiff
2022-07-21
Ben Soares
JAL-4036 New configuration, target and pagination proce...
tree
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commitdiff
2022-07-20
Jim Procter
JAL-4045 - don't apply distribution dependent scale...
tree
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commitdiff
2022-07-15
Ben Soares
JAL-4034 Use the new non-modal JDialog for 3DBeacons...
tree
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commitdiff
2022-07-15
Ben Soares
JAL-4034 Allow request for non-modal JDialog, which...
tree
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commitdiff
2022-07-12
Ben Soares
JAL-4034 change to jalview property name
tree
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commitdiff
2022-07-12
Ben Soares
JAL-4034 showConfirmDialog works for both desktop and...
tree
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commitdiff
2022-07-11
Ben Soares
JAL-4034 Non-blocking 3D Beacons query after warning...
tree
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commitdiff
2022-07-11
Ben Soares
JAL-4034 allow a jalview_property to set the threshold...
tree
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commitdiff
2022-07-04
Jim Procter
JAL-4034 fix #3 change uniprot ref fetch dialog to...
tree
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commitdiff
2022-07-04
Jim Procter
JAL-4034 Fix #2 show an icon and a button to press...
tree
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commitdiff
2022-06-30
Jim Procter
JAL-4036 use the legacy endpoint (and report the FTS...
tree
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commitdiff
2022-06-28
Ben Soares
Merge branch 'improvement/JAL-1988+JAL-3416_Java8_macOS...
tree
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commitdiff
2022-06-28
Ben Soares
JAL-1988 Don't put Quit in the File menu if there's...
tree
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commitdiff
2022-06-24
Jim Procter
JAL-2349 JAL-3855 formatting
tree
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commitdiff
2022-06-24
Jim Procter
JAL-4033 TODO re highlighting current column selection
tree
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commitdiff
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