X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAlignViewport.java;h=40d3dd499a51bb149c8ce4c70616cc70c16bd648;hb=b03ab64755cdfd11f8d1f2c93d01f276d121e6d7;hp=e7cae4434305e6beea837c9fc87f28067a0db551;hpb=9fff97021c2c637e426f6971d54dcf3fd4191985;p=jalview.git

diff --git a/src/jalview/appletgui/AlignViewport.java b/src/jalview/appletgui/AlignViewport.java
index e7cae44..40d3dd4 100755
--- a/src/jalview/appletgui/AlignViewport.java
+++ b/src/jalview/appletgui/AlignViewport.java
@@ -74,6 +74,14 @@ public class AlignViewport
   boolean scaleLeftWrapped = true;
   boolean scaleRightWrapped = true;
 
+  public Vector vconsensus;
+  AlignmentAnnotation consensus;
+  AlignmentAnnotation conservation;
+  AlignmentAnnotation quality;
+
+  public int ConsPercGaps = 25; // JBPNote : This should be a scalable property!
+
+  private java.beans.PropertyChangeSupport changeSupport = new java.beans.PropertyChangeSupport(this);
 
   boolean ignoreGapsInConsensusCalculation = false;
 
@@ -139,12 +147,6 @@ public class AlignViewport
     showSequenceFeatures = b;
   }
 
-  public Vector vconsensus;
-  AlignmentAnnotation consensus;
-  AlignmentAnnotation conservation;
-  AlignmentAnnotation quality;
-
-  public int ConsPercGaps = 25; // JBPNote : This should be a scalable property!
 
   public void updateConservation()
   {
@@ -301,6 +303,9 @@ public class AlignViewport
       consensus.annotations = annotations;
     }
 
+    if(globalColourScheme!=null)
+          globalColourScheme.setConsensus(vconsensus);
+
   }
 
   public SequenceGroup getSelectionGroup()
@@ -653,16 +658,50 @@ public class AlignViewport
   {
     ignoreGapsInConsensusCalculation = b;
     updateConsensus();
-    if (globalColourScheme!=null && globalColourScheme instanceof ResidueColourScheme)
+    if (globalColourScheme!=null)
     {
-      ( (ResidueColourScheme) globalColourScheme).setThreshold(
-          ( (ResidueColourScheme) globalColourScheme).getThreshold(),
+      globalColourScheme.setThreshold(globalColourScheme.getThreshold(),
           ignoreGapsInConsensusCalculation);
 
     }
+  }
+
+  /**
+   * Property change listener for changes in alignment
+   *
+   * @param listener DOCUMENT ME!
+   */
+  public void addPropertyChangeListener(
+      java.beans.PropertyChangeListener listener)
+  {
+      changeSupport.addPropertyChangeListener(listener);
+  }
 
+  /**
+   * DOCUMENT ME!
+   *
+   * @param listener DOCUMENT ME!
+   */
+  public void removePropertyChangeListener(
+      java.beans.PropertyChangeListener listener)
+  {
+      changeSupport.removePropertyChangeListener(listener);
+  }
+
+  /**
+   * Property change listener for changes in alignment
+   *
+   * @param prop DOCUMENT ME!
+   * @param oldvalue DOCUMENT ME!
+   * @param newvalue DOCUMENT ME!
+   */
+  public void firePropertyChange(String prop, Object oldvalue, Object newvalue)
+  {
+      changeSupport.firePropertyChange(prop, oldvalue, newvalue);
   }
 
+
+
   public boolean getIgnoreGapsConsensus()
   {
     return ignoreGapsInConsensusCalculation;