X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fschemes%2FAnnotationColourGradient.java;fp=src%2Fjalview%2Fschemes%2FAnnotationColourGradient.java;h=00744c02677398470323cc064fb078a6cdc0e81b;hb=4ecba72bdecb7f685bf7629e7784d2d11c172f9d;hp=3ed18bf34c618a9586f1d3af10a18290c1c08b35;hpb=09b8644607fb5b9debbfe39a7177922b0e66aa9a;p=jalview.git

diff --git a/src/jalview/schemes/AnnotationColourGradient.java b/src/jalview/schemes/AnnotationColourGradient.java
index 3ed18bf..00744c0 100755
--- a/src/jalview/schemes/AnnotationColourGradient.java
+++ b/src/jalview/schemes/AnnotationColourGradient.java
@@ -247,6 +247,10 @@ public class AnnotationColourGradient extends FollowerColourScheme
         perLineScore = plcount == ancount;
         aamax=plmax;
       }
+      else
+      {
+        perLineScore = false;
+      }
       if (rna)
       {
         ColourSchemeProperty.initRnaHelicesShading(1 + (int) aamax);