X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fuk%2Fac%2Fvamsas%2Fobjects%2Futils%2FTrees.java;h=eaa705842ba06fcee08491799aaec2958eaf8ea8;hb=1eea4b639911330e7cd65e17c5421cc584f0d22e;hp=718d8fa810146c324962a9ee524ee49db6f24f7f;hpb=eb584e50596aa1345d7fd5e609c94d990980b692;p=vamsas.git

diff --git a/src/uk/ac/vamsas/objects/utils/Trees.java b/src/uk/ac/vamsas/objects/utils/Trees.java
index 718d8fa..eaa7058 100644
--- a/src/uk/ac/vamsas/objects/utils/Trees.java
+++ b/src/uk/ac/vamsas/objects/utils/Trees.java
@@ -1,3 +1,24 @@
+/*
+ * This file is part of the Vamsas Client version 0.2. 
+ * Copyright 2010 by Jim Procter, Iain Milne, Pierre Marguerite, 
+ *  Andrew Waterhouse and Dominik Lindner.
+ * 
+ * Earlier versions have also been incorporated into Jalview version 2.4 
+ * since 2008, and TOPALi version 2 since 2007.
+ * 
+ * The Vamsas Client is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *  
+ * The Vamsas Client is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU Lesser General Public License for more details.
+ * 
+ * You should have received a copy of the GNU Lesser General Public License
+ * along with the Vamsas Client.  If not, see <http://www.gnu.org/licenses/>.
+ */
 package uk.ac.vamsas.objects.utils;
 
 import java.io.IOException;
@@ -8,12 +29,13 @@ import uk.ac.vamsas.objects.utils.trees.NewickFile;
 public class Trees {
 
   /**
-   * TODO: implement
-   * helper functions based on NewickFile tree parser
+   * TODO: implement helper functions based on NewickFile tree parser
    * 
-   * 1. create a newickfile object from a newick string.
-   * 2. let user map a vamsas object to each node by setting that node's ((SequenceNode)node).setElement(VorbaId) 
-   * 3. generate Tree object with newickString as a newick string, and added treenodes to  record mapping to vorba ids
+   * 1. create a newickfile object from a newick string. 2. let user map a
+   * vamsas object to each node by setting that node's
+   * ((SequenceNode)node).setElement(VorbaId) 3. generate Tree object with
+   * newickString as a newick string, and added treenodes to record mapping to
+   * vorba ids
    */
-  
+
 }