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Merge remote-tracking branch 'origin/Tcoffee_JAL-1065' into develop
[jalview.git]
/
src
/
jalview
/
gui
/
2011-09-14
jprocter
JAL-766 JAL-733 - new alignment->jmol associations...
tree
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commitdiff
2011-09-14
jprocter
JAL-766 JAL-733 - new alignment->jmol associations...
tree
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commitdiff
2011-08-30
jprocter
JAL-915 - ensured that exceptions are not raised in...
tree
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commitdiff
2011-08-30
jprocter
JAL-715 rsbs service editing
tree
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commitdiff
2011-08-30
jprocter
JAL-715 JalviewDialog for RSBS service editing pane
tree
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commitdiff
2011-08-29
jprocter
JAL-919, JAL-715 - prototype service editing dialog...
tree
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commitdiff
2011-08-29
jprocter
JAL-633, JAL-591 - refactored ArgumentI.getValue from...
tree
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commitdiff
2011-08-29
jprocter
refactored popup dialog boilerplate code to own class
tree
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commitdiff
2011-08-28
janengelhardt
Including of VARNAv-3.9;
tree
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commitdiff
2011-08-25
jprocter
constructor only needs GUI container interface
tree
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commitdiff
2011-08-25
jprocter
JAL-591 - refactored web service parameter dialog to...
tree
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commitdiff
2011-08-25
jprocter
debug dialog
tree
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commitdiff
2011-08-24
jprocter
JAL-715 dialog for interactively editing a new or exist...
tree
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commitdiff
2011-08-24
jprocter
refactor labelled button creator to JvSwingUtils
tree
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commitdiff
2011-08-18
jprocter
remove debug message
tree
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commitdiff
2011-08-18
jprocter
fix for JAL-701 - ensure '<' appears in tooltip in...
tree
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commitdiff
2011-08-18
jprocter
minor efficiency refactor
tree
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commitdiff
2011-08-17
jprocter
JAL-853 use service action attribute to index services...
tree
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commitdiff
2011-08-17
jprocter
remove any trailing '/' from the URL before validation...
tree
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commitdiff
2011-08-17
jprocter
avoid NPE race condition when several threads waiting...
tree
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commitdiff
2011-08-17
jprocter
fix for JAL-888
tree
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commitdiff
2011-08-17
jprocter
fix for JAL-888
tree
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commitdiff
2011-08-17
jprocter
JAL-867 - rejigged layout to a single splitpane wide...
tree
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commitdiff
2011-08-16
janengelhardt
JAL-842; Text element containing the structure is not...
tree
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commitdiff
2011-08-15
janengelhardt
JAL-891; Tooltips for Structure logos implemented;
tree
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commitdiff
2011-08-15
janengelhardt
JAL-878; Structures associated to a sequence are availa...
tree
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commitdiff
2011-08-15
jprocter
JAL-747 - warning dialog if Jalview can't resolve filen...
tree
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commitdiff
2011-08-15
janengelhardt
JAL-891; Sorting of Structure logo implemented; bug...
tree
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commitdiff
2011-08-11
jprocter
avoid NPE for null annotation element columns JAL-896
tree
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commitdiff
2011-08-11
janengelhardt
JAL-885; hasRNAStructure method was introduced to Align...
tree
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commitdiff
2011-08-10
janengelhardt
JAL-885; Structure conservation row is just added if...
tree
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commitdiff
2011-08-09
janengelhardt
JAL-891; base-pair logos can now be activated for structure
tree
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commitdiff
2011-08-08
janengelhardt
JAL-891; structure logo is adapted to two char's; Missi...
tree
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commitdiff
2011-08-08
janengelhardt
JAL-891; sequence logos are available on structure...
tree
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commitdiff
2011-08-05
jprocter
allow several progress bars on the desktop window ...
tree
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commitdiff
2011-08-04
jprocter
JAL-896 - patch to ensure arrows in different direction...
tree
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commitdiff
2011-08-04
jprocter
JAL-883 - refactored and debugged arrow, stem and helix...
tree
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commitdiff
2011-07-31
janengelhardt
JAL-885; StructureConservation row is displayed at...
tree
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commitdiff
2011-07-29
janengelhardt
JAL-885; Implementation of StructureFrequency.java...
tree
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commitdiff
2011-07-28
jprocter
refer to local default setting for proxy when connecting to
tree
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commitdiff
2011-07-25
jprocter
use proper encoding for storing colour as user preferen...
tree
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commitdiff
2011-07-25
janengelhardt
some print statements to test things
tree
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commitdiff
2011-07-25
janengelhardt
JAL-882; VARNA crashed when non-standard gaps where...
tree
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commitdiff
2011-07-25
janengelhardt
JAL-878; Additional structures with a 'GR' tag in Stock...
tree
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commitdiff
2011-07-25
janengelhardt
JAL-842; toy example to insert nucleotides in sequences...
tree
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commitdiff
2011-07-25
janengelhardt
JAL-842; Implement transmitting of Jalview Sequence...
tree
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commitdiff
2011-07-25
janengelhardt
JAL-842: some bugfixes;
tree
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commitdiff
2011-07-25
janengelhardt
JAL-842; Added the TextField to edit structure in VARNA
tree
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commitdiff
2011-07-25
janengelhardt
JAL-842; trimming single structures for single sequence...
tree
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commitdiff
2011-07-25
janengelhardt
JAL-842; Give Varna frames name for window organizer...
tree
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commitdiff
2011-07-25
janengelhardt
Varna external frame bug solved
tree
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commitdiff
2011-07-25
janengelhardt
Reorganize the class structure, unfortunately breaks...
tree
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commitdiff
2011-07-25
janengelhardt
clean code
tree
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commitdiff
2011-07-25
janengelhardt
Further structure accessing feature
tree
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commitdiff
2011-07-25
janengelhardt
Changed location of VARNAv3-8b.jar; small changes
tree
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commitdiff
2011-07-25
janengelhardt
jal-842; sequence transmitting to Varna included
tree
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commitdiff
2011-07-25
janengelhardt
JAL-842, AppVarnaBinding was filled with a minimalistic...
tree
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commitdiff
2011-07-25
janengelhardt
JAL-842, Further creation of VARNA classes (probably...
tree
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commitdiff
2011-07-25
janengelhardt
Container for VARNA classes are created according to...
tree
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commitdiff
2011-07-25
janengelhardt
JAL-841; Structure trigger token in jalview.io.Alignmen...
tree
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commitdiff
2011-07-25
janengelhardt
Start merging of Laurens Code
tree
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commitdiff
2011-07-25
janengelhardt
New branch created and author list changed to test...
tree
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commitdiff
2011-07-22
jprocter
todo for JAL-860 - associate multiple sequences with...
tree
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commitdiff
2011-07-22
jprocter
ensure propagation of colour change on annotation updat...
tree
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commitdiff
2011-07-22
jprocter
fix NPE when annotation colourgradient is applied
tree
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commitdiff
2011-07-22
jprocter
code style
tree
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commitdiff
2011-07-22
jprocter
default parameter for colours in annotation shading...
tree
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commitdiff
2011-07-21
jprocter
retrieve all sequences matching a particular name ...
tree
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commitdiff
2011-07-10
jprocter
progress when saving state (JAL-870) and hack to trap...
tree
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commitdiff
2011-07-09
jprocter
documentation for menu item JAL-860
tree
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commitdiff
2011-07-09
jprocter
menu item and constructor to open a bunch of structures...
tree
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commitdiff
2011-07-09
jprocter
refactored from PopupMenu (for JAL-860)
tree
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commitdiff
2011-07-09
jprocter
JAL-868 todo
tree
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commitdiff
2011-07-08
jprocter
open each query result from an alignment datasource...
tree
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commitdiff
2011-07-07
jprocter
comment re JAL-153
tree
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commitdiff
2011-07-05
jprocter
Revert "partial patch for JAL-411 - text rendered above...
tree
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commitdiff
2011-07-05
jprocter
partial patch for JAL-411 - text rendered above features
tree
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commitdiff
2011-07-04
jprocter
jmb isn't created yet, so use another SSM provider
tree
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commitdiff
2011-06-23
jprocter
jmb isn't created yet, so use another SSM provider
tree
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commitdiff
2011-05-17
jprocter
refactor to allow distinct StructureSelectionManager...
tree
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commitdiff
2011-05-05
jprocter
ensure feature renderer settings come from the given...
tree
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commitdiff
2011-04-25
jprocter
JAL-824 - additional methods to allow jmol colouring...
tree
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commitdiff
2011-04-25
jprocter
JAL-824 - patch to schema to allow jmol colouring state...
tree
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commitdiff
2011-04-25
jprocter
toggle of inclusion/exclusion of views for colouring...
tree
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commitdiff
2011-04-22
jprocter
formatting
tree
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commitdiff
2011-04-22
jprocter
removed useless flag (was always null for button press...
tree
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commitdiff
2011-04-22
jprocter
JAL-823 and JAL-824 - seqColour no longer the default...
tree
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commitdiff
2011-04-22
jprocter
comments re JAL-823 legacy issue
tree
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commitdiff
2011-04-22
jprocter
clarify tooltip
tree
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commitdiff
2011-04-21
jprocter
JAL-641 patch
tree
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commitdiff
2011-04-21
jprocter
patch for JAL-733
tree
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commitdiff
2011-04-21
jprocter
patch for JAL-820 and JAL-821
tree
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commitdiff
2011-04-21
jprocter
separated alignment annotation height calculation from...
tree
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commitdiff
2011-04-21
jprocter
save and recover graph height, visibility and row posit...
tree
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commitdiff
2011-04-19
jprocter
avoid race condition when featureRenderer for structure...
tree
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commitdiff
2011-04-08
jprocter
todo
tree
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commitdiff
2011-02-28
jprocter
excess imports
tree
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commitdiff
2011-02-25
jprocter
first approximation for JAL-782 - hint that opaque...
tree
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commitdiff
2011-02-18
jprocter
JAL-777/JAL-641 debugging
tree
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commitdiff
2011-02-18
jprocter
new alignmentPanel api + JAL-777/JAL-641 debugging
tree
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commitdiff
next