Merge branch 'develop' into menard

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

diff --git a/src/jalview/io/PileUpfile.java b/src/jalview/io/PileUpfile.java
index 4fb4ee7..3fffab3 100755 (executable)
--- a/src/jalview/io/PileUpfile.java
+++ b/src/jalview/io/PileUpfile.java
@@ -1,13 +1,13 @@
 /*
- * 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)
+ * 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 
@@ -99,7 +99,7 @@ public class PileUpfile extends MSFfile
     StringBuffer out = new StringBuffer("PileUp");
     out.append(newline);
     out.append(newline);
-    
+
     int max = 0;
     int maxid = 0;
 
@@ -114,8 +114,7 @@ public class PileUpfile extends MSFfile
     }
 
     out.append("   MSF: " + s[0].getSequence().length
-            + "   Type: P    Check:  " + bigChecksum % 10000
-            + "   ..");
+            + "   Type: P    Check:  " + bigChecksum % 10000 + "   ..");
     out.append(newline);
     out.append(newline);
     out.append(newline);
@@ -147,8 +146,11 @@ public class PileUpfile extends MSFfile
     }
 
     maxid++;
-    out.append(newline);out.append(newline);out.append("//");
-    out.append(newline);out.append(newline);
+    out.append(newline);
+    out.append(newline);
+    out.append("//");
+    out.append(newline);
+    out.append(newline);
 
     int len = 50;