X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemes%2FRNAInteractionColourScheme.java;h=d23680373986212d94875a38748c9f61f3710648;hb=9cd96dd3e43ae32814fa8c62df274ff9224bfdbc;hp=707afd716bac05b400e1ee1aeb974090020054fa;hpb=b0cee3aaf7d8873910939f97b6acb217d518968d;p=jalview.git

diff --git a/src/jalview/schemes/RNAInteractionColourScheme.java b/src/jalview/schemes/RNAInteractionColourScheme.java
index 707afd7..d236803 100644
--- a/src/jalview/schemes/RNAInteractionColourScheme.java
+++ b/src/jalview/schemes/RNAInteractionColourScheme.java
@@ -20,9 +20,12 @@
  */
 package jalview.schemes;
 
+import jalview.datamodel.AnnotatedCollectionI;
+import jalview.datamodel.SequenceCollectionI;
 import jalview.datamodel.SequenceI;
 
 import java.awt.Color;
+import java.util.Map;
 
 public class RNAInteractionColourScheme extends ResidueColourScheme
 {
@@ -42,25 +45,12 @@ public class RNAInteractionColourScheme extends ResidueColourScheme
   public Color findColour(char c, int j, SequenceI seq)
   {
     // FIXME this is just a copy of NucleotideColourScheme
-    Color currentColour;
-    if ((threshold == 0) || aboveThreshold(c, j))
+    Color currentColour = Color.white;
+    try
     {
-      try
-      {
-        currentColour = colors[ResidueProperties.nucleotideIndex[c]];
-      } catch (Exception ex)
-      {
-        return Color.white;
-      }
-    }
-    else
-    {
-      return Color.white;
-    }
-
-    if (conservationColouring)
+      currentColour = colors[ResidueProperties.nucleotideIndex[c]];
+    } catch (Exception ex)
     {
-      currentColour = applyConservation(currentColour, j);
     }
 
     return currentColour;
@@ -77,4 +67,15 @@ public class RNAInteractionColourScheme extends ResidueColourScheme
   {
     return "RNA Interaction type";
   }
+
+  /**
+   * Returns a new instance of this colour scheme with which the given data may
+   * be coloured
+   */
+  @Override
+  public ColourSchemeI getInstance(AnnotatedCollectionI coll,
+          Map<SequenceI, SequenceCollectionI> hrs)
+  {
+    return new RNAInteractionColourScheme();
+  }
 }