X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAppVarnaBinding.java;h=a738a2c760edda661d8a2ba1be3e7ed055783551;hb=c2214808f64b811a25cec10399dcff38db0c592c;hp=574a2da1a7ba45211d825c3b0032ff166506330d;hpb=47168f025aefdaa044802bd5f8f510ffe43a4808;p=jalview.git

diff --git a/src/jalview/gui/AppVarnaBinding.java b/src/jalview/gui/AppVarnaBinding.java
index 574a2da..a738a2c 100644
--- a/src/jalview/gui/AppVarnaBinding.java
+++ b/src/jalview/gui/AppVarnaBinding.java
@@ -103,17 +103,23 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
 
   private JTextField _seq = new JTextField();
 
-  private JLabel _strLabel = new JLabel(MessageManager.getString("label.str"));
+  private JLabel _strLabel = new JLabel(
+          MessageManager.getString("label.str"));
 
-  private JLabel _seqLabel = new JLabel(MessageManager.getString("label.seq"));
+  private JLabel _seqLabel = new JLabel(
+          MessageManager.getString("label.seq"));
 
-  private JButton _createButton = new JButton(MessageManager.getString("action.create"));
+  private JButton _createButton = new JButton(
+          MessageManager.getString("action.create"));
 
-  private JButton _updateButton = new JButton(MessageManager.getString("action.update"));
+  private JButton _updateButton = new JButton(
+          MessageManager.getString("action.update"));
 
-  private JButton _deleteButton = new JButton(MessageManager.getString("action.delete"));
+  private JButton _deleteButton = new JButton(
+          MessageManager.getString("action.delete"));
 
-  private JButton _duplicateButton = new JButton(MessageManager.getString("action.snapshot"));
+  private JButton _duplicateButton = new JButton(
+          MessageManager.getString("action.snapshot"));
 
   protected JPanel _listPanel = new JPanel();
 
@@ -145,7 +151,7 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
   {
     // super("VARNA in Jalview");
     initVarna(seq, struc);
-   
+
   }
 
   public AppVarnaBinding(ArrayList<RNA> rnaList)
@@ -157,7 +163,7 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
 
   private void initVarna(String seq, String str)
   {
-	  
+
     DefaultListModel dlm = new DefaultListModel();
 
     DefaultListSelectionModel m = new DefaultListSelectionModel();
@@ -190,7 +196,7 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
 
     try
     {
-    
+
       vp = new VARNAPanel("0", ".");
       _RNA1.setRNA(seq, str);
       _RNA1.drawRNARadiate(vp.getConfig());
@@ -219,7 +225,7 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
 
   private void initVarnaEdit(ArrayList<RNA> rnaInList)
   {
-	
+
     DefaultListModel dlm = new DefaultListModel();
 
     int marginTools = 40;
@@ -243,7 +249,7 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
           FullBackup sel = (FullBackup) _sideList.getSelectedValue();
           Mapping map = Mapping.DefaultOutermostMapping(vp.getRNA()
                   .getSize(), sel.rna.getSize());
-          //vp.showRNAInterpolated(sel.rna, sel.config, map);
+          // vp.showRNAInterpolated(sel.rna, sel.config, map);
           vp.showRNA(sel.rna, sel.config);
           // _seq.setText(sel.rna.getSeq());
           _str.setText(sel.rna.getStructDBN());
@@ -254,12 +260,12 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
 
     try
     {
-    	
+
       vp = new VARNAPanel("0", ".");
       for (int i = 0; i < rnaInList.size(); i++)
       {
         rnaInList.get(i).drawRNARadiate(vp.getConfig());
-       
+
       }
     } catch (ExceptionNonEqualLength e)
     {
@@ -346,7 +352,9 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
     ops.add(_deleteButton);
     ops.add(_duplicateButton);
 
-    JLabel j = new JLabel(MessageManager.getString("label.structures_manager"), JLabel.CENTER);
+    JLabel j = new JLabel(
+            MessageManager.getString("label.structures_manager"),
+            JLabel.CENTER);
     _listPanel.setLayout(new BorderLayout());
 
     // _listPanel.add(ops, BorderLayout.SOUTH);
@@ -809,10 +817,11 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
   public void onUINewStructure(VARNAConfig v, RNA r)
   {
     // patch to fix infinite loop
-    // The problem is that onUINewStructure is called when user clicks 
+    // The problem is that onUINewStructure is called when user clicks
     // check with Yann about whether Jalview should do anything with this event.
-    // e.g. if user has used VARNA's menu to import a structure .. Jalview may need to be told which structure is displayed.
-    
+    // e.g. if user has used VARNA's menu to import a structure .. Jalview may
+    // need to be told which structure is displayed.
+
     // _rnaList.add(v, r, "", true);
   }
 
@@ -948,14 +957,14 @@ public class AppVarnaBinding extends jalview.ext.varna.JalviewVarnaBinding
   public void onZoomLevelChanged()
   {
     // TODO Auto-generated method stub
-    
+
   }
 
   @Override
   public void onTranslationChanged()
   {
     // TODO Auto-generated method stub
-    
+
   }
 }