X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FFastaFile.java;h=c698a31b81963fe24ec8c3044ceaf6a10eb0fb15;hb=1c721468246c2aafd86fc52d954512374f576b11;hp=da925e409073de16130bdffb6c93863c891811d7;hpb=7d67fb613ec026dc9a265e351e7fab542e3f1d61;p=jalview.git

diff --git a/src/jalview/io/FastaFile.java b/src/jalview/io/FastaFile.java
index da925e4..c698a31 100755
--- a/src/jalview/io/FastaFile.java
+++ b/src/jalview/io/FastaFile.java
@@ -20,14 +20,14 @@
  */
 package jalview.io;
 
+import java.io.IOException;
+
 import jalview.datamodel.Alignment;
 import jalview.datamodel.AlignmentAnnotation;
 import jalview.datamodel.Annotation;
 import jalview.datamodel.Sequence;
 import jalview.datamodel.SequenceI;
 
-import java.io.IOException;
-
 /**
  * DOCUMENT ME!
  * 
@@ -69,7 +69,12 @@ public class FastaFile extends AlignFile
 
   public FastaFile(FileParse source) throws IOException
   {
-    super(source);
+    this(source, true);
+  }
+
+  public FastaFile(FileParse source, boolean closeData) throws IOException
+  {
+    super(true, source, closeData);
   }
 
   public FastaFile(SequenceI[] seqs)
@@ -164,8 +169,8 @@ public class FastaFile extends AlignFile
         anots[i] = new Annotation("" + cn, null, ' ', Float.NaN);
       }
     }
-    AlignmentAnnotation aa = new AlignmentAnnotation(seq.getName()
-            .substring(2), seq.getDescription(), anots);
+    AlignmentAnnotation aa = new AlignmentAnnotation(
+            seq.getName().substring(2), seq.getDescription(), anots);
     return aa;
   }