X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FPairwiseAlignPanel.java;h=05372a473d21d989d0f26218724ed8a6658af121;hb=4486cbff6855402579eff5ccbada47f15a5e8653;hp=480f719283bd3f63da9d9d5efd027156ffbec2bb;hpb=0452450533728e478ef8c893ea2cb3483c740fb3;p=jalview.git

diff --git a/src/jalview/appletgui/PairwiseAlignPanel.java b/src/jalview/appletgui/PairwiseAlignPanel.java
index 480f719..05372a4 100755
--- a/src/jalview/appletgui/PairwiseAlignPanel.java
+++ b/src/jalview/appletgui/PairwiseAlignPanel.java
@@ -1,6 +1,6 @@
 /*
  * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
  *
  * This program is free software; you can redistribute it and/or
  * modify it under the terms of the GNU General Public License
@@ -21,11 +21,11 @@ package jalview.appletgui;
 
 import java.util.*;
 
+import java.awt.*;
 import java.awt.event.*;
 
 import jalview.analysis.*;
 import jalview.datamodel.*;
-import java.awt.*;
 
 public class PairwiseAlignPanel
     extends Panel implements ActionListener
@@ -61,7 +61,8 @@ public class PairwiseAlignPanel
     float scores[][] = new float[seqs.length][seqs.length];
     double totscore = 0;
     int count = ap.av.getSelectionGroup().getSize();
-    String type=(ap.av.alignment.isNucleotide()) ? AlignSeq.DNA : AlignSeq.PEP;
+    String type = (ap.av.alignment.isNucleotide()) ? AlignSeq.DNA :
+        AlignSeq.PEP;
     Sequence seq;
 
     for (int i = 1; i < count; i++)
@@ -126,10 +127,13 @@ public class PairwiseAlignPanel
       System.out.println("\n");
     }
   }
+
   public void actionPerformed(ActionEvent evt)
   {
-    if(evt.getSource()==viewInEditorButton)
+    if (evt.getSource() == viewInEditorButton)
+    {
       viewInEditorButton_actionPerformed();
+    }
   }
 
   protected void viewInEditorButton_actionPerformed()
@@ -143,28 +147,31 @@ public class PairwiseAlignPanel
     }
 
     new AlignFrame(new Alignment(seq),
-                                   ap.av.applet,
-                                   "Pairwise Aligned Sequences",
-                                   false);
+                   ap.av.applet,
+                   "Pairwise Aligned Sequences",
+                   false);
 
   }
+
   protected ScrollPane scrollPane = new ScrollPane();
   protected TextArea textarea = new TextArea();
   protected Button viewInEditorButton = new Button();
   Panel jPanel1 = new Panel();
   BorderLayout borderLayout1 = new BorderLayout();
 
-  private void jbInit() throws Exception {
-      this.setLayout(borderLayout1);
-      textarea.setFont(new java.awt.Font("Monospaced", 0, 12));
-      textarea.setText("");
-      viewInEditorButton.setFont(new java.awt.Font("Verdana", 0, 12));
-      viewInEditorButton.setLabel("View in alignment editor");
-      viewInEditorButton.addActionListener(this);
-      this.add(scrollPane, BorderLayout.CENTER);
-      scrollPane.add(textarea);
-      this.add(jPanel1, BorderLayout.SOUTH);
-      jPanel1.add(viewInEditorButton, null);
+  private void jbInit()
+      throws Exception
+  {
+    this.setLayout(borderLayout1);
+    textarea.setFont(new java.awt.Font("Monospaced", 0, 12));
+    textarea.setText("");
+    viewInEditorButton.setFont(new java.awt.Font("Verdana", 0, 12));
+    viewInEditorButton.setLabel("View in alignment editor");
+    viewInEditorButton.addActionListener(this);
+    this.add(scrollPane, BorderLayout.CENTER);
+    scrollPane.add(textarea);
+    this.add(jPanel1, BorderLayout.SOUTH);
+    jPanel1.add(viewInEditorButton, null);
   }
 
 }