X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fcalculations%2Ftreeviewer.html;h=fe6dbbc64fb42398ba983fb459e032327d110c3f;hb=1335a93a7eb656ab1bd08572d4be2b386a9043c9;hp=f98ea5d1c5b963bc7b8425fe4467a5e573cda71f;hpb=5db78fd966c7a3586986be6c608a06ca18b7c341;p=jalview.git

diff --git a/help/html/calculations/treeviewer.html b/help/html/calculations/treeviewer.html
index f98ea5d..fe6dbbc 100755
--- a/help/html/calculations/treeviewer.html
+++ b/help/html/calculations/treeviewer.html
@@ -1,4 +1,21 @@
 <html>
+<!--
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ * 
+ * Jalview 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 General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+-->
 <head>
 <title>The Tree Viewing Window</title>
 </head>
@@ -59,8 +76,8 @@ the tree. Tree imported from outside may also contain bootstrap information,
 and additional leaves from sequences not present in the associated
 alignment.
 </p>
-<p>The view menu contains options controlling the way a tree is
-rendered and labelled:
+<p>The view menu mostly contains options controlling the way a tree is
+rendered and labeled:
 <ul>
 <li><strong>Fit to Window</strong><p>
 The tree layout will be scaled to fit in the  display
@@ -82,12 +99,19 @@ Toggles the display of a '*' at the beginning of a leaf label to
 indicate that there is no sequence corresponding to that leaf in the
 associated alignment.
 </p></li>
-<li><strong>Associate Leaves with ...</strong><p>
-Only visible when there are <a href="../features/multipleviews.html">multiple views</a> of the same
-alignment to show and edit which alignment views are associated with
-the leaves of the displayed tree.
-</p>
-</ul>
+		<li><strong>Sort Alignment By Tree</strong>
+		<p>
+				Sorts any associated alignment views using the current tree. (<em>Only
+					available in the Jalview Desktop</em>)
+			</p>
+		</li>
+		<li><strong>Associate Leaves with ...</strong>
+		<p>
+				Only visible when there are <a href="../features/multipleviews.html">multiple
+					views</a> of the same alignment to show and edit which alignment views
+				are associated with the leaves of the displayed tree.
+			</p>
+	</ul>
 </p>
 </body>
 </html>
