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JAL-1065 JAL-1066 - use direct object reference rather then index into alignment
[jalview.git]
/
src
/
jalview
/
schemes
/
AnnotationColourGradient.java
diff --git
a/src/jalview/schemes/AnnotationColourGradient.java
b/src/jalview/schemes/AnnotationColourGradient.java
index
5d12cce
..
b0365ce
100755
(executable)
--- a/
src/jalview/schemes/AnnotationColourGradient.java
+++ b/
src/jalview/schemes/AnnotationColourGradient.java
@@
-19,6
+19,7
@@
package jalview.schemes;
import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.GraphLine;
import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.GraphLine;
+import jalview.datamodel.SequenceI;
import java.awt.Color;
import java.awt.Color;
@@
-154,7
+155,7
@@
public class AnnotationColourGradient extends ResidueColourScheme
* @return DOCUMENT ME!
*/
@Override
* @return DOCUMENT ME!
*/
@Override
- public Color findColour(char c, int j, int sequenceIndex)
+ public Color findColour(char c, int j, SequenceI seq)
{
Color currentColour = Color.white;
{
Color currentColour = Color.white;
@@
-204,7
+205,7
@@
public class AnnotationColourGradient extends ResidueColourScheme
if (colourScheme != null)
{
if (colourScheme != null)
{
- currentColour = colourScheme.findColour(c, j, sequenceIndex);
+ currentColour = colourScheme.findColour(c, j, seq);
}
else if (range != 0)
{
}
else if (range != 0)
{