setcolour in seqpanel now needs to know about conservation

diff --git a/src/jalview/gui/UserDefinedColours.java b/src/jalview/gui/UserDefinedColours.java
index 0c181b0..c78c093 100755 (executable)
--- a/src/jalview/gui/UserDefinedColours.java
+++ b/src/jalview/gui/UserDefinedColours.java
@@ -89,7 +89,7 @@ public class UserDefinedColours extends GUserDefinedColours implements ChangeLis
 \r
     ucs.setThreshold(0);\r
     ucs.setColourScheme( newColours );\r
-    seqPanel.setColourScheme( ucs );\r
+    seqPanel.setColourScheme( ucs, false );\r
   }\r
 \r
   protected void loadbutton_actionPerformed(ActionEvent e)\r
@@ -157,7 +157,7 @@ public class UserDefinedColours extends GUserDefinedColours implements ChangeLis
     }\r
 \r
     ucs.setColourScheme( newColours );\r
-    seqPanel.setColourScheme( ucs );\r
+    seqPanel.setColourScheme( ucs, false );\r
 \r
   }\r
 \r