X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Fmsa%2FMsaInferrer.java;h=55aa7f7e724c92cf9a26d9a32b60751d4ad1c7b3;hb=a4f2896c53c804220bbd53429780592a86c9e4b6;hp=8266648d640dcebb62f6092942592fbd6cc3bd84;hpb=a1f96e88c8d5c06bc64a7b614dd883d696b0fefe;p=jalview.git

diff --git a/forester/java/src/org/forester/msa/MsaInferrer.java b/forester/java/src/org/forester/msa/MsaInferrer.java
index 8266648..55aa7f7 100644
--- a/forester/java/src/org/forester/msa/MsaInferrer.java
+++ b/forester/java/src/org/forester/msa/MsaInferrer.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;
 
@@ -29,6 +29,7 @@ import java.io.File;
 import java.io.IOException;
 import java.util.List;
 
+import org.forester.sequence.Sequence;
 import org.forester.util.SystemCommandExecutor;
 
 public abstract class MsaInferrer {
@@ -47,4 +48,7 @@ public abstract class MsaInferrer {
     }
 
     public abstract Msa infer( File path_to_input_seqs, List<String> opts ) throws IOException, InterruptedException;
+
+    public abstract Msa infer( final List<Sequence> seqs, final List<String> opts ) throws IOException,
+            InterruptedException;
 }