March 2009 Commit Log

Number of Commits:

14

Number of Active Developers:

1

jprocter 2009-03-31 17:42 #14

note on new popup menu in feature settings dialog

4 lines of code changed in:

• help/html/features: featuresettings.html (+4)

jprocter 2009-03-31 17:40 #13

added feature gradient colours and sortby feature score/density to feature settings dialog.

647 lines of code changed in:

• src/jalview/appletgui: FeatureColourChooser.java (new 379), FeatureRenderer.java (+104 -7), FeatureSettings.java (+155 -1), UserDefinedColours.java (+9)

jprocter 2009-03-31 17:39 #12

prototype for store/restore of feature colour gradient settings

0 lines of code changed in:

• src/jalview/binding: Alignment.java (changed), Annotation.java (changed), AnnotationElement.java (changed), Colour.java (changed), Feature.java (changed), FeatureSettings.java (changed), Features.java (changed), JGroup.java (changed), JSeq.java (changed), JalviewModel.java (changed), JalviewModelSequence.java (changed), JalviewUserColours.java (changed), Pdbentry.java (changed), PdbentryItem.java (changed), Pdbids.java (changed), Property.java (changed), Sequence.java (changed), SequenceSet.java (changed), SequenceType.java (changed), Setting.java (changed), Tree.java (changed), UserColourScheme.java (changed), UserColours.java (changed), VAMSAS.java (changed), VamsasModel.java (changed), Viewport.java (changed)

jprocter 2009-03-31 17:39 #11

todo

0 lines of code changed in:

• src/jalview/io: FeaturesFile.java (changed)

jprocter 2009-03-31 17:38 #10

prototype for store/restore of feature colour gradient settings

24 lines of code changed in:

• schemas: jalview.xsd (+10 -1)
• src/jalview/gui: Jalview2XML.java (+14 -4)
• src/jalview/schemabinding/version2: .castor.cdr (changed), SequenceSetProperties.java (changed), Setting.java (changed), StructureState.java (changed)
• src/jalview/schemabinding/version2/descriptors: SettingDescriptor.java (changed)

jprocter 2009-03-17 17:00 #9

allow configuration of graduated colour

37 lines of code changed in:

• src/jalview/gui: FeatureSettings.java (+37 -4)

jprocter 2009-03-17 17:00 #8

quantitative shading of features by GraduatedColor

140 lines of code changed in:

• src/jalview/gui: FeatureRenderer.java (+140 -55)

jprocter 2009-03-17 16:59 #7

prototype dialog for setting feature display shading and threshold

450 lines of code changed in:

• src/jalview/gui: FeatureColourChooser.java (new 450)

jprocter 2009-03-17 16:58 #6

holds shading and range parameters rendering a feature colour

156 lines of code changed in:

• src/jalview/schemes: GraduatedColor.java (new 156)

jprocter 2009-03-17 16:57 #5

sortbytree view setting and action added - setting is not yet stored in the jalview xml

78 lines of code changed in:

• src/jalview/gui: AlignViewport.java (+32 -3), TreePanel.java (+46 -24)

jprocter 2009-03-17 16:56 #4

sortbytree/nosortbytree and defprop arguments. (defprop disabled for moment)

27 lines of code changed in:

• src/jalview/bin: Jalview.java (+27 -3)

jprocter 2009-03-17 16:55 #3

new sortbytree default config property

3 lines of code changed in:

• src/jalview/bin: Cache.java (+3 -1)

jprocter 2009-03-17 16:54 #2

sortbytree parameter added and undo re-instated for sort by tree and sort by id

49 lines of code changed in:

• src/jalview/appletgui: AlignFrame.java (+39 -12), AlignViewport.java (+10)

jprocter 2009-03-17 16:50 #1

fixes launchApp bug where user defined colourscheme defined in applet parameter does not get passed to application

39 lines of code changed in:

• src/jalview/schemes: ColourSchemeProperty.java (+39 -26)

February 2009 »