JAL-2805 JAL-281 JAL-2847 set tree file made public as well (heh)

[jalview.git] / forester / java / src / org / forester / msa / MsaInferrer.java

diff --git a/forester/java/src/org/forester/msa/MsaInferrer.java b/forester/java/src/org/forester/msa/MsaInferrer.java
index 8c839f9..45fec85 100644 (file)
--- 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;
 
@@ -29,7 +29,7 @@ import java.io.File;
 import java.io.IOException;
 import java.util.List;
 
-import org.forester.sequence.Sequence;
+import org.forester.sequence.MolecularSequence;
 import org.forester.util.SystemCommandExecutor;
 
 public abstract class MsaInferrer {
@@ -49,6 +49,6 @@ 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;
+    public abstract Msa infer( final List<MolecularSequence> seqs, final List<String> opts ) throws IOException,
+    InterruptedException;
 }