JAL-2805 getNodeSequences returns a list now instead of array (size

[jalview.git] / src / jalview / ext / forester / io / NexusFile.java

diff --git a/src/jalview/ext/forester/io/NexusFile.java b/src/jalview/ext/forester/io/NexusFile.java
index 2db46cc..51f3bc3 100644 (file)
--- a/src/jalview/ext/forester/io/NexusFile.java
+++ b/src/jalview/ext/forester/io/NexusFile.java
@@ -8,6 +8,7 @@ import jalview.io.FileParse;
 
 import java.io.File;
 import java.io.IOException;
+import java.util.List;
 
 public class NexusFile extends AlignFile
 {
@@ -30,12 +31,13 @@ public class NexusFile extends AlignFile
     TreeParserI parser = ForesterParser
             .createNexusParser(new File(getDataName()));
     TreeI[] trees = parser.parse();
-    for (TreeI tree : trees) {
-      for (SequenceI seq : tree.getNodeSequences()) {
+    List<SequenceI> treeSeqs = trees[0].getNodeSequences();
+    for (SequenceI seq : treeSeqs)
+    {
         seqs.add(seq);
       }
     }
 
   }
 
-}
+