JAL-1238 test to see if the primary Uniprot source is placed first in list of Uniprot...

[jalview.git] / src / jalview / io / FastaFile.java

diff --git a/src/jalview/io/FastaFile.java b/src/jalview/io/FastaFile.java
index 034e129..0c0d186 100755 (executable)
--- a/src/jalview/io/FastaFile.java
+++ b/src/jalview/io/FastaFile.java
@@ -1,13 +1,13 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
+ * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
  * 
  * 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 
@@ -203,7 +203,7 @@ public class FastaFile extends AlignFile
         out.append(" " + s[i].getDescription());
       }
 
-      out.append("\n");
+      out.append(newline);
 
       int nochunks = (s[i].getLength() / len) + 1;
 
@@ -214,12 +214,12 @@ public class FastaFile extends AlignFile
 
         if (end < s[i].getLength())
         {
-          out.append(s[i].getSequenceAsString(start, end) + "\n");
+          out.append(s[i].getSequenceAsString(start, end) + newline);
         }
         else if (start < s[i].getLength())
         {
           out.append(s[i].getSequenceAsString(start, s[i].getLength())
-                  + "\n");
+                  + newline);
         }
       }