X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAlignViewport.java;fp=src%2Fjalview%2Fappletgui%2FAlignViewport.java;h=607dc05fc4d7104cde0a336b3ba00bcaf5a5f05c;hb=2a9991ef1eb02d97e9c8ed1644f292117ae6f600;hp=ef17215eec78fc2d659ce594b70cee9c5a336956;hpb=2ce465aaa3047e1ef758a26af2fbfcf8626b4a69;p=jalview.git

diff --git a/src/jalview/appletgui/AlignViewport.java b/src/jalview/appletgui/AlignViewport.java
index ef17215..607dc05 100644
--- a/src/jalview/appletgui/AlignViewport.java
+++ b/src/jalview/appletgui/AlignViewport.java
@@ -20,6 +20,8 @@
  */
 package jalview.appletgui;
 
+import java.awt.Font;
+
 import jalview.analysis.NJTree;
 import jalview.api.AlignViewportI;
 import jalview.api.FeatureRenderer;
@@ -39,8 +41,6 @@ import jalview.structure.StructureSelectionManager;
 import jalview.structure.VamsasSource;
 import jalview.viewmodel.AlignmentViewport;
 
-import java.awt.Font;
-
 public class AlignViewport extends AlignmentViewport implements
         SelectionSource, VamsasSource, CommandListener
 {
@@ -60,6 +60,8 @@ public class AlignViewport extends AlignmentViewport implements
 
   private FeatureRenderer featureRenderer;
 
+  private boolean includeHiddenRegion = true;
+
   public void finalize()
   {
     applet = null;
@@ -483,4 +485,14 @@ public class AlignViewport extends AlignmentViewport implements
 
   }
 
+  public boolean isIncludeHiddenRegion()
+  {
+    return includeHiddenRegion;
+  }
+
+  public void setIncludeHiddenRegion(boolean includeHiddenRegion)
+  {
+    this.includeHiddenRegion = includeHiddenRegion;
+  }
+
 }