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fix for JAL-1579 create threshold object for annotation rows that match shading patte...
author
Jim Procter
<jprocter@dundee.ac.uk>
Mon, 3 Nov 2014 13:02:39 +0000
(13:02 +0000)
committer
Jim Procter
<jprocter@dundee.ac.uk>
Mon, 3 Nov 2014 13:02:39 +0000
(13:02 +0000)
src/jalview/gui/AnnotationColourChooser.java
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diff --git
a/src/jalview/gui/AnnotationColourChooser.java
b/src/jalview/gui/AnnotationColourChooser.java
index
3c552a4
..
b8996b6
100644
(file)
--- a/
src/jalview/gui/AnnotationColourChooser.java
+++ b/
src/jalview/gui/AnnotationColourChooser.java
@@
-22,6
+22,7
@@
package jalview.gui;
import jalview.bin.Cache;
import jalview.datamodel.AlignmentAnnotation;
import jalview.bin.Cache;
import jalview.datamodel.AlignmentAnnotation;
+import jalview.datamodel.GraphLine;
import jalview.datamodel.SequenceGroup;
import jalview.schemes.AnnotationColourGradient;
import jalview.schemes.ColourSchemeI;
import jalview.datamodel.SequenceGroup;
import jalview.schemes.AnnotationColourGradient;
import jalview.schemes.ColourSchemeI;
@@
-724,9
+725,19
@@
public class AnnotationColourChooser extends JPanel
for (int i = 0; i < av.getAlignment().getAlignmentAnnotation().length; i++)
{
AlignmentAnnotation aa = av.getAlignment().getAlignmentAnnotation()[i];
for (int i = 0; i < av.getAlignment().getAlignmentAnnotation().length; i++)
{
AlignmentAnnotation aa = av.getAlignment().getAlignmentAnnotation()[i];
- if (aa.label.equals(currentAnnotation.label))
+ if (aa.label.equals(currentAnnotation.label)
+ && (currentAnnotation.getCalcId() == null ? aa.getCalcId() == null
+ : currentAnnotation.getCalcId()
+ .equals(aa.getCalcId())))
{
{
- aa.threshold.value = thr;
+ if (aa.threshold == null)
+ {
+ aa.threshold = new GraphLine(currentAnnotation.threshold);
+ }
+ else
+ {
+ aa.threshold.value = thr;
+ }
}
}
}
}
}
}