X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=src%2Fjalview%2Fschemes%2FPIDColourScheme.java;fp=src%2Fjalview%2Fschemes%2FPIDColourScheme.java;h=6ca1393f44656d77ba9277a7ad7283f3957731a3;hb=a3fb8ffb6b29504b24717bf1dafc45d8f04abc67;hp=a6301fab9d8e5165f32a675abdc0282d92eaae21;hpb=ef7288c0cdbcb714f7c0cb4acbdb35e8f33ecfc6;p=jalview.git

diff --git a/src/jalview/schemes/PIDColourScheme.java b/src/jalview/schemes/PIDColourScheme.java
index a6301fa..6ca1393 100755
--- a/src/jalview/schemes/PIDColourScheme.java
+++ b/src/jalview/schemes/PIDColourScheme.java
@@ -57,7 +57,7 @@ public class PIDColourScheme extends ResidueColourScheme
       c -= ('a' - 'A');
     }
 
-    if (consensusResidue == null)
+    if (consensusResidue == null || Comparison.isGap(c))
     {
       return Color.white;
     }
@@ -71,15 +71,12 @@ public class PIDColourScheme extends ResidueColourScheme
             String.valueOf(c));
     if (matchesConsensus)
     {
-      if (!Comparison.isGap(c))
+      for (int i = 0; i < thresholds.length; i++)
       {
-        for (int i = 0; i < thresholds.length; i++)
+        if (pid > thresholds[i])
         {
-          if (pid > thresholds[i])
-          {
-            colour = pidColours[i];
-            break;
-          }
+          colour = pidColours[i];
+          break;
         }
       }
     }