git://source.jalview.org
/
jalview.git
/ blobdiff
commit
grep
author
committer
pickaxe
?
search:
re
summary
|
shortlog
|
log
|
commit
|
commitdiff
|
tree
raw
|
inline
| side by side
AnnotationId is hashcode of object
[jalview.git]
/
src
/
jalview
/
schemes
/
NucleotideColourScheme.java
diff --git
a/src/jalview/schemes/NucleotideColourScheme.java
b/src/jalview/schemes/NucleotideColourScheme.java
index
f36bcad
..
899fc60
100755
(executable)
--- a/
src/jalview/schemes/NucleotideColourScheme.java
+++ b/
src/jalview/schemes/NucleotideColourScheme.java
@@
-44,10
+44,10
@@
public class NucleotideColourScheme extends ResidueColourScheme
*
\r
* @return DOCUMENT ME!
\r
*/
\r
*
\r
* @return DOCUMENT ME!
\r
*/
\r
- public Color findColour(String n)
\r
+ public Color findColour(char c)
\r
{
\r
// System.out.println("called"); log.debug
\r
{
\r
// System.out.println("called"); log.debug
\r
- return colors[ResidueProperties.nucleotideIndex[n.charAt(0)]];
\r
+ return colors[ResidueProperties.nucleotideIndex[c]];
\r
}
\r
\r
/**
\r
}
\r
\r
/**
\r
@@
-58,14
+58,14
@@
public class NucleotideColourScheme extends ResidueColourScheme
*
\r
* @return DOCUMENT ME!
\r
*/
\r
*
\r
* @return DOCUMENT ME!
\r
*/
\r
- public Color findColour(String n, int j)
\r
+ public Color findColour(char c, int j)
\r
{
\r
Color currentColour;
\r
{
\r
Color currentColour;
\r
- if ((threshold == 0) || aboveThreshold(n, j))
\r
+ if ((threshold == 0) || aboveThreshold(c, j))
\r
{
\r
try
\r
{
\r
{
\r
try
\r
{
\r
- currentColour = colors[ ResidueProperties.nucleotideIndex[n.charAt(0)]];
\r
+ currentColour = colors[ ResidueProperties.nucleotideIndex[c]];
\r
}
\r
catch (Exception ex)
\r
{
\r
}
\r
catch (Exception ex)
\r
{
\r
@@
-78,7
+78,7
@@
public class NucleotideColourScheme extends ResidueColourScheme
}
\r
\r
if(conservationColouring)
\r
}
\r
\r
if(conservationColouring)
\r
- applyConservation(currentColour, j);
\r
+ currentColour = applyConservation(currentColour, j);
\r
\r
return currentColour;
\r
}
\r
\r
return currentColour;
\r
}
\r