JAL-2588 (and JAL-2610, JAL-2603) mid refactor

[jalview.git] / src / jalview / appletgui / SequenceRenderer.java

diff --git a/src/jalview/appletgui/SequenceRenderer.java b/src/jalview/appletgui/SequenceRenderer.java
index 78ed4a3..c774a19 100755 (executable)
--- a/src/jalview/appletgui/SequenceRenderer.java
+++ b/src/jalview/appletgui/SequenceRenderer.java
@@ -48,8 +48,6 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
 
   Graphics graphics;
 
-  boolean forOverview = false;
-
   public SequenceRenderer(AlignViewport av)
   {
     this.av = av;
@@ -115,15 +113,10 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
 
   void getBoxColour(ResidueShaderI shader, SequenceI seq, int i)
   {
-    if (shader != null)
+    if (shader.getColourScheme() != null)
     {
       resBoxColour = shader.findColour(seq.getCharAt(i), i, seq);
     }
-    else if (forOverview
-            && !jalview.util.Comparison.isGap(seq.getCharAt(i)))
-    {
-      resBoxColour = Color.lightGray;
-    }
     else
     {
       resBoxColour = Color.white;