X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=src%2Fjalview%2Fgui%2FAppJmolBinding.java;h=a287fb28e26b45e8ce0f88ffba615fdc0a5f34a8;hb=55deb271c9f6fa106548013a9790db38d518cf6c;hp=932517205d2a76048dad99a679419d7c1cab6239;hpb=3d0101179759ef157b088ea135423cd909512d9f;p=jalview.git

diff --git a/src/jalview/gui/AppJmolBinding.java b/src/jalview/gui/AppJmolBinding.java
index 9325172..a287fb2 100644
--- a/src/jalview/gui/AppJmolBinding.java
+++ b/src/jalview/gui/AppJmolBinding.java
@@ -21,6 +21,7 @@
 package jalview.gui;
 
 import jalview.api.AlignmentViewPanel;
+import jalview.api.SequenceRendererI;
 import jalview.api.structures.JalviewStructureDisplayI;
 import jalview.bin.Cache;
 import jalview.datamodel.PDBEntry;
@@ -49,9 +50,9 @@ public class AppJmolBinding extends JalviewJmolBinding
   }
 
   @Override
-  public SequenceRenderer getSequenceRenderer(AlignmentViewPanel alignment)
+  protected IProgressIndicator getIProgressIndicator()
   {
-    return new SequenceRenderer(((AlignmentPanel) alignment).av);
+    return appJmolWindow.progressBar;
   }
 
   @Override
@@ -103,21 +104,6 @@ public class AppJmolBinding extends JalviewJmolBinding
   }
 
   @Override
-  public void updateColours(Object source)
-  {
-    AlignmentPanel ap = (AlignmentPanel) source;
-    // ignore events from panels not used to colour this view
-    if (!appJmolWindow.isUsedforcolourby(ap))
-    {
-      return;
-    }
-    if (!isLoadingFromArchive())
-    {
-      colourBySequence(ap);
-    }
-  }
-
-  @Override
   public void notifyScriptTermination(String strStatus, int msWalltime)
   {
     // todo - script termination doesn't happen ?
@@ -141,15 +127,11 @@ public class AppJmolBinding extends JalviewJmolBinding
   @Override
   public void selectionChanged(BS arg0)
   {
-    // TODO Auto-generated method stub
-
   }
 
   @Override
   public void refreshPdbEntries()
   {
-    // TODO Auto-generated method stub
-
   }
 
   @Override
@@ -185,7 +167,6 @@ public class AppJmolBinding extends JalviewJmolBinding
   @Override
   public Map<String, Object> getJSpecViewProperty(String arg0)
   {
-    // TODO Auto-generated method stub
     return null;
   }