X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=src%2Fjalview%2Fio%2FMSFfile.java;h=ab2c49726e45089f762066e85c4feef6605aed9c;hb=20dd6fc13a9d903dc580939e7f2722bc9b043c4f;hp=05765e374b68c5f954003f31dcbf5a5b5dbc30b7;hpb=47168f025aefdaa044802bd5f8f510ffe43a4808;p=jalview.git

diff --git a/src/jalview/io/MSFfile.java b/src/jalview/io/MSFfile.java
index 05765e3..ab2c497 100755
--- a/src/jalview/io/MSFfile.java
+++ b/src/jalview/io/MSFfile.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -20,11 +20,15 @@
  */
 package jalview.io;
 
-import java.io.*;
-import java.util.*;
+import jalview.datamodel.Sequence;
+import jalview.datamodel.SequenceI;
+import jalview.util.Comparison;
+import jalview.util.Format;
 
-import jalview.datamodel.*;
-import jalview.util.*;
+import java.io.IOException;
+import java.util.Hashtable;
+import java.util.StringTokenizer;
+import java.util.Vector;
 
 /**
  * DOCUMENT ME!
@@ -63,10 +67,6 @@ public class MSFfile extends AlignFile
     super(source);
   }
 
-  {
-    // TODO Auto-generated constructor stub
-  }
-
   /**
    * DOCUMENT ME!
    */
@@ -214,7 +214,7 @@ public class MSFfile extends AlignFile
   public String print(SequenceI[] seqs)
   {
 
-    boolean is_NA = jalview.util.Comparison.isNucleotide(seqs);
+    boolean is_NA = Comparison.isNucleotide(seqs);
 
     SequenceI[] s = new SequenceI[seqs.length];
 
@@ -303,8 +303,8 @@ public class MSFfile extends AlignFile
       nameBlock[i] = new String("  Name: " + printId(s[i]) + " ");
 
       idBlock[i] = new String("Len: "
-              + maxLenpad.form(s[i].getSequence().length) + "  Check: "
-              + maxChkpad.form(checksums[i]) + "  Weight: 1.00" + newline);
+              + maxLenpad.formLong(s[i].getSequence().length) + "  Check: "
+              + maxChkpad.formLong(checksums[i]) + "  Weight: 1.00" + newline);
 
       if (s[i].getName().length() > maxid)
       {