From 8904428112b78efda2ecf28e9151b38a6f6be168 Mon Sep 17 00:00:00 2001
From: Jim Procter <jprocter@issues.jalview.org>
Date: Sat, 5 Sep 2015 18:40:05 +0100
Subject: [PATCH] JAL-1871 choose a new RNA Helices palette when annotation
 colouring is updated

---
 src/jalview/schemes/AnnotationColourGradient.java |    8 ++++++++
 1 file changed, 8 insertions(+)

diff --git a/src/jalview/schemes/AnnotationColourGradient.java b/src/jalview/schemes/AnnotationColourGradient.java
index 121d6ca..133dd36 100755
--- a/src/jalview/schemes/AnnotationColourGradient.java
+++ b/src/jalview/schemes/AnnotationColourGradient.java
@@ -114,6 +114,7 @@ public class AnnotationColourGradient extends FollowerColourScheme
     bb = 0;
 
     noGradient = true;
+    checkLimits();
   }
 
   /**
@@ -140,10 +141,17 @@ public class AnnotationColourGradient extends FollowerColourScheme
     bb = maxColour.getBlue() - b1;
 
     noGradient = false;
+    checkLimits();
+  }
+
+  private void checkLimits()
+  {
     aamax = annotation.graphMax;
     aamin = annotation.graphMin;
     if (annotation.isRNA())
     {
+      // reset colour palette
+      ColourSchemeProperty.resetRnaHelicesShading();
       ColourSchemeProperty.initRnaHelicesShading(1 + (int) aamax);
     }
   }
-- 
1.7.10.2