From 95114daeda16764e98a2d8eb0b47acbeeeba5bcf Mon Sep 17 00:00:00 2001
From: jprocter <Jim Procter>
Date: Sun, 14 Nov 2010 14:53:34 +0000
Subject: [PATCH] node rename for deuniquifying trees from web service
 transformations

---
 src/jalview/analysis/NJTree.java |   17 +++++++++++++++++
 1 file changed, 17 insertions(+)

diff --git a/src/jalview/analysis/NJTree.java b/src/jalview/analysis/NJTree.java
index ee782e7..6976dc3 100755
--- a/src/jalview/analysis/NJTree.java
+++ b/src/jalview/analysis/NJTree.java
@@ -345,7 +345,24 @@ public class NJTree
       }
     }
   }
+  /**
+   * rename any nodes according to their associated sequence.
+   * This will modify the tree's metadata! (ie the original NewickFile or newly generated BinaryTree's label data) 
+   */
+  public void renameAssociatedNodes() {
+    applyToNodes(new NodeTransformI() {
 
+      @Override
+      public void transform(BinaryNode node)
+      {
+        Object el = node.element();
+        if (el!=null && el instanceof SequenceI)
+        {
+          node.setName(((SequenceI)el).getName());
+        }
+      }
+    });
+  }
   /**
    * DOCUMENT ME!
    */
-- 
1.7.10.2