X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FPairwiseAlignPanel.java;h=6738556599fdd2a345f1adc1684762bd96022824;hb=d5ad9ef13d6f9d542e89d97b82cbd86b11ed7bae;hp=95d38d5b1db6b4b0c638a159c2274abad3ae88d2;hpb=797df64fa2a0a30773d0f48f5494d4155e5a8be3;p=jalview.git

diff --git a/src/jalview/gui/PairwiseAlignPanel.java b/src/jalview/gui/PairwiseAlignPanel.java
index 95d38d5..6738556 100755
--- a/src/jalview/gui/PairwiseAlignPanel.java
+++ b/src/jalview/gui/PairwiseAlignPanel.java
@@ -1,29 +1,30 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
- * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+ * Copyright (C) 2014 The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
  * Jalview is free software: you can redistribute it and/or
  * modify it under the terms of the GNU General Public License 
  * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
- * 
+ *  
  * Jalview is distributed in the hope that it will be useful, but 
  * WITHOUT ANY WARRANTY; without even the implied warranty 
  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
  * PURPOSE.  See the GNU General Public License for more details.
  * 
  * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package jalview.gui;
 
 import java.util.*;
-
 import java.awt.event.*;
 
 import jalview.analysis.*;
 import jalview.datamodel.*;
 import jalview.jbgui.*;
+import jalview.util.MessageManager;
 
 /**
  * DOCUMENT ME!
@@ -56,14 +57,14 @@ public class PairwiseAlignPanel extends GPairwiseAlignPanel
 
     if (av.getSelectionGroup() == null)
     {
-      seqs = av.alignment.getSequencesArray();
+      seqs = av.getAlignment().getSequencesArray();
     }
     else
     {
-      seqs = av.getSelectionGroup().getSequencesInOrder(av.alignment);
+      seqs = av.getSelectionGroup().getSequencesInOrder(av.getAlignment());
     }
 
-    String type = (av.alignment.isNucleotide()) ? AlignSeq.DNA
+    String type = (av.getAlignment().isNucleotide()) ? AlignSeq.DNA
             : AlignSeq.PEP;
 
     float[][] scores = new float[seqs.length][seqs.length];
@@ -148,7 +149,7 @@ public class PairwiseAlignPanel extends GPairwiseAlignPanel
     AlignFrame af = new AlignFrame(new Alignment(seq),
             AlignFrame.DEFAULT_WIDTH, AlignFrame.DEFAULT_HEIGHT);
 
-    Desktop.addInternalFrame(af, "Pairwise Aligned Sequences",
+    Desktop.addInternalFrame(af, MessageManager.getString("label.pairwise_aligned_sequences"),
             AlignFrame.DEFAULT_WIDTH, AlignFrame.DEFAULT_HEIGHT);
   }
 }