JAL-3148 SequenceRenderer, ResidueColourFinder overloads and

[jalview.git] / src / jalview / gui / AppJmolBinding.java

diff --git a/src/jalview/gui/AppJmolBinding.java b/src/jalview/gui/AppJmolBinding.java
index 724cec1..a287fb2 100644 (file)
--- 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;
@@ -55,12 +56,6 @@ public class AppJmolBinding extends JalviewJmolBinding
   }
 
   @Override
-  public SequenceRenderer getSequenceRenderer(AlignmentViewPanel alignment)
-  {
-    return new SequenceRenderer(((AlignmentPanel) alignment).av);
-  }
-
-  @Override
   public void sendConsoleEcho(String strEcho)
   {
     if (console != null)
@@ -109,21 +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 ?
@@ -147,15 +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
@@ -191,7 +167,6 @@ public class AppJmolBinding extends JalviewJmolBinding
   @Override
   public Map<String, Object> getJSpecViewProperty(String arg0)
   {
-    // TODO Auto-generated method stub
     return null;
   }