X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Fmsa%2FMsa.java;h=1eb9533c17c278f510d6816b83576eb1f7ccb8d6;hb=d4d61f9d2969283e821f650d031c169899fb3870;hp=6ffa1ea3cf27c279b3a29020cd611ea6cfa64656;hpb=b1a74bd076c917d428002284a53a2c6f390226fb;p=jalview.git

diff --git a/forester/java/src/org/forester/msa/Msa.java b/forester/java/src/org/forester/msa/Msa.java
index 6ffa1ea..1eb9533 100644
--- a/forester/java/src/org/forester/msa/Msa.java
+++ b/forester/java/src/org/forester/msa/Msa.java
@@ -21,7 +21,7 @@
 // Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
 //
 // Contact: phylosoft @ gmail . com
-// WWW: www.phylosoft.org/forester
+// WWW: https://sites.google.com/site/cmzmasek/home/software/forester
 
 package org.forester.msa;
 
@@ -34,6 +34,10 @@ import org.forester.sequence.Sequence.TYPE;
 
 public interface Msa {
 
+    public static enum MSA_FORMAT {
+        FASTA, PHYLIP;
+    }
+
     public String getIdentifier( int row );
 
     public void setIdentifier( int row, String identifier );
@@ -58,5 +62,5 @@ public interface Msa {
 
     public void setResidueAt( final int row, final int col, final char residue );
 
-    public void write( Writer w ) throws IOException;
+    public void write( Writer w, MSA_FORMAT format ) throws IOException;
 }