reset colours added

diff --git a/src/jalview/schemes/ClustalxColourScheme.java b/src/jalview/schemes/ClustalxColourScheme.java
index c6b63dd..fe1289e 100755 (executable)
--- a/src/jalview/schemes/ClustalxColourScheme.java
+++ b/src/jalview/schemes/ClustalxColourScheme.java
@@ -45,11 +45,15 @@ public class ClustalxColourScheme extends ResidueColourScheme
     }\r
   Vector colourTable = new Vector();\r
 \r
-\r
   public ClustalxColourScheme(Vector seqs, int maxWidth)\r
   {\r
+    resetClustalX(seqs, maxWidth);\r
+  }\r
+\r
+  public void resetClustalX(Vector seqs, int maxWidth)\r
+  {\r
     cons2 = new int[maxWidth][24];\r
-    int start = 0, end = maxWidth-1;\r
+    int start = 0;\r
 \r
     // Initialize the array\r
     for (int j=0;j<24;j++)\r
@@ -220,11 +224,6 @@ public class ClustalxColourScheme extends ResidueColourScheme
     return Color.pink;\r
   }\r
 \r
- public void setGroupSizeChanged(int i)\r
- {\r
-   size = i;\r
- }\r
-\r
   public Color findColour(String s, int j)\r
    {\r
      if( threshold!=0 && !aboveThreshold(s,j))\r