X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAlignViewport.java;h=7352495fe27c7b1f1d2b344cdb51965259cc032f;hb=dfb0a0fc461353af5800d46078816f5d43720edc;hp=b21f47e67c792ad0067c4d9903cd9ef634f4fb64;hpb=e142bcca7d3c8a10695b87f94bc724cc2f5ab165;p=jalview.git

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index b21f47e..7352495 100755
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -20,9 +20,8 @@ public class AlignViewport
   boolean showColourText=false;
   boolean showBoxes=true;
   boolean wrapAlignment=false;
-  boolean renderGaps = false;
-  boolean groupEdit    = false;
-  boolean groupDefiningMode = true;
+  boolean renderGaps = true;
+  boolean showSequenceFeatures = true;
 
   ColourSchemeI globalColourScheme = null;
   boolean conservationColourSelected = false;
@@ -39,7 +38,7 @@ public class AlignViewport
   Font            font = new Font("SansSerif",Font.PLAIN,10);
   AlignmentI      alignment;
 
-  Selection       sel    = new Selection();
+  Selection       sel    = new Selection(this);
   ColumnSelection colSel = new ColumnSelection();
 
   OutputGenerator og;
@@ -91,6 +90,10 @@ public class AlignViewport
     setFont( font );
  }
 
+ public void showSequenceFeatures(boolean b)
+ {
+   showSequenceFeatures = b;
+ }
 
   public String getVisibleConsensus()
   {
@@ -276,15 +279,7 @@ public class AlignViewport
   public boolean getShowBoxes() {
     return showBoxes;
   }
- // public CommandParser getCommandLog() {
- ///   return log;
- // }
-  public boolean getGroupEdit() {
-    return groupEdit;
-  }
-  public void setGroupEdit(boolean state) {
-    groupEdit = state;
-  }
+
   public char getGapCharacter() {
     return getAlignment().getGapCharacter();
   }