X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAnnotationColourChooser.java;fp=src%2Fjalview%2Fgui%2FAnnotationColourChooser.java;h=e89c1c2998ecdf210b8f03b7490b5c997b9663c5;hb=3da878124135ff033f42d19d8733891b09e953cd;hp=b5472141ee6f30c50dd2f5c230acaae4de6633a6;hpb=2d8dfad8a0aa6a6febfc0c3bc0379de0b46e0cfc;p=jalview.git

diff --git a/src/jalview/gui/AnnotationColourChooser.java b/src/jalview/gui/AnnotationColourChooser.java
index b547214..e89c1c2 100644
--- a/src/jalview/gui/AnnotationColourChooser.java
+++ b/src/jalview/gui/AnnotationColourChooser.java
@@ -308,7 +308,7 @@ public class AnnotationColourChooser extends AnnotationRowFilter
   @Override
   public void reset()
   {
-    av.setGlobalColourScheme(oldcs);
+    this.ap.alignFrame.changeColour(oldcs);
     if (av.getAlignment().getGroups() != null)
     {
 
@@ -433,7 +433,7 @@ public class AnnotationColourChooser extends AnnotationRowFilter
 
     acg.setThresholdIsMinMax(thresholdIsMin.isSelected());
 
-    av.setGlobalColourScheme(acg);
+    this.ap.alignFrame.changeColour(acg);
 
     if (av.getAlignment().getGroups() != null)
     {
@@ -445,7 +445,7 @@ public class AnnotationColourChooser extends AnnotationRowFilter
           continue;
         }
         sg.setColourScheme(
-                acg.getInstance(sg, ap.av.getHiddenRepSequences()));
+                acg.getInstance(av, sg));
       }
     }
   }
@@ -456,5 +456,4 @@ public class AnnotationColourChooser extends AnnotationRowFilter
     super.sliderDragReleased();
     ap.paintAlignment(true, true);
   }
-
 }