X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemes%2FNucleotideColourScheme.java;h=899fc60ae99d22f2cc372d99e22a543480dd3534;hb=f3349bc9021e8ef27cf56dd7bc8417f1762f31e3;hp=f36bcadec05f46c3f78b7deb3913060a9ea478da;hpb=3d941a02a998676a12f8ff43fa98d9e1f4c27142;p=jalview.git

diff --git a/src/jalview/schemes/NucleotideColourScheme.java b/src/jalview/schemes/NucleotideColourScheme.java
index f36bcad..899fc60 100755
--- a/src/jalview/schemes/NucleotideColourScheme.java
+++ b/src/jalview/schemes/NucleotideColourScheme.java
@@ -44,10 +44,10 @@ public class NucleotideColourScheme extends ResidueColourScheme
      *
      * @return DOCUMENT ME!
      */
-    public Color findColour(String n)
+    public Color findColour(char c)
     {
         // System.out.println("called"); log.debug
-        return colors[ResidueProperties.nucleotideIndex[n.charAt(0)]];
+        return colors[ResidueProperties.nucleotideIndex[c]];
     }
 
     /**
@@ -58,14 +58,14 @@ public class NucleotideColourScheme extends ResidueColourScheme
      *
      * @return DOCUMENT ME!
      */
-    public Color findColour(String n, int j)
+    public Color findColour(char c, int j)
     {
         Color currentColour;
-        if ((threshold == 0) || aboveThreshold(n, j))
+        if ((threshold == 0) || aboveThreshold(c, j))
         {
             try
             {
-                currentColour = colors[ ResidueProperties.nucleotideIndex[n.charAt(0)]];
+                currentColour = colors[ ResidueProperties.nucleotideIndex[c]];
             }
             catch (Exception ex)
             {
@@ -78,7 +78,7 @@ public class NucleotideColourScheme extends ResidueColourScheme
         }
 
         if(conservationColouring)
-         applyConservation(currentColour, j);
+         currentColour = applyConservation(currentColour, j);
 
        return currentColour;
     }