From: Jim Procter <jprocter@issues.jalview.org>
Date: Sat, 5 Sep 2015 17:40:05 +0000 (+0100)
Subject: JAL-1871 choose a new RNA Helices palette when annotation colouring is updated
X-Git-Tag: Release_2_10_0~488
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=8904428112b78efda2ecf28e9151b38a6f6be168;p=jalview.git

JAL-1871 choose a new RNA Helices palette when annotation colouring is updated
---

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);
     }
   }