X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fio%2FFastaFile.java;h=4c2265c90cae72ca7670ba7bcab77db678f77bc7;hb=b5f2dfda36c463b93f34db95fe5bc5ff2a1516bf;hp=b867ba4982adff7976c142b1602f79c5ef55d39d;hpb=4d7f98a6dd54d9863ba449ec79dcd95d25ed863d;p=jalview.git

diff --git a/src/jalview/io/FastaFile.java b/src/jalview/io/FastaFile.java
index b867ba4..4c2265c 100755
--- a/src/jalview/io/FastaFile.java
+++ b/src/jalview/io/FastaFile.java
@@ -77,6 +77,7 @@ public class FastaFile extends AlignFile
    * @throws IOException
    *           DOCUMENT ME!
    */
+  @Override
   public void parse() throws IOException
   {
     StringBuffer sb = new StringBuffer();
@@ -173,7 +174,7 @@ public class FastaFile extends AlignFile
     addProperties(al);
     for (int i = 0; i < annotations.size(); i++)
     {
-      AlignmentAnnotation aa = (AlignmentAnnotation) annotations
+      AlignmentAnnotation aa = annotations
               .elementAt(i);
       aa.setPadGaps(true, al.getGapCharacter());
       al.addAnnotation(aa);
@@ -209,7 +210,8 @@ public class FastaFile extends AlignFile
 
       out.append(newline);
 
-      int nochunks = (s[i].getLength() / len) + 1;
+      int nochunks = (s[i].getLength() / len)
+              + (s[i].getLength() % len > 0 ? 1 : 0);
 
       for (int j = 0; j < nochunks; j++)
       {
@@ -238,6 +240,7 @@ public class FastaFile extends AlignFile
    * 
    * @return DOCUMENT ME!
    */
+  @Override
   public String print()
   {
     return print(getSeqsAsArray());