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[jalview.git]
/
forester
/
java
/
src
/
org
/
forester
/
msa
/
Msa.java
diff --git
a/forester/java/src/org/forester/msa/Msa.java
b/forester/java/src/org/forester/msa/Msa.java
index
6ffa1ea
..
1eb9533
100644
(file)
--- 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
// 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;
package org.forester.msa;
@@
-34,6
+34,10
@@
import org.forester.sequence.Sequence.TYPE;
public interface Msa {
public interface Msa {
+ public static enum MSA_FORMAT {
+ FASTA, PHYLIP;
+ }
+
public String getIdentifier( int row );
public void setIdentifier( int row, String identifier );
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 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;
}
}