From 2a40019eb6a0beb79dc29263a4173e6adb2909a7 Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Tue, 14 Jun 2005 15:01:21 +0000
Subject: [PATCH] reset if clustalX colouring

---
 src/jalview/datamodel/SequenceGroup.java |   12 ++++++++++++
 1 file changed, 12 insertions(+)

diff --git a/src/jalview/datamodel/SequenceGroup.java b/src/jalview/datamodel/SequenceGroup.java
index b4c21fc..116e172 100755
--- a/src/jalview/datamodel/SequenceGroup.java
+++ b/src/jalview/datamodel/SequenceGroup.java
@@ -156,11 +156,18 @@ public class SequenceGroup
 
   public void recalcConservation()
   {
+    System.out.println("sg recalc");
     if (cs != null)
     {
       cs.setConsensus(AAFrequency.calculate(sequences, 0, getWidth()));
     }
 
+    if (cs instanceof ClustalxColourScheme)
+    {
+      ( (ClustalxColourScheme) cs).resetClustalX(sequences,getWidth());
+    }
+
+
     if ( cs  instanceof ConservationColourScheme)
     {
       Conservation c = new Conservation(groupName,
@@ -171,6 +178,11 @@ public class SequenceGroup
 
       ConservationColourScheme ccs = (ConservationColourScheme) cs;
       ccs.conserve = c;
+      if (ccs.cs instanceof ClustalxColourScheme)
+      {
+        ( (ClustalxColourScheme) ccs.cs).resetClustalX(sequences, getWidth());
+      }
+
     }
   }
 
-- 
1.7.10.2