X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fcalculations%2Ftreeviewer.html;h=2eaba4c5eff9e230e348c6485253c76d455fa477;hb=7deae742715932ec04121b96a7cac76d0fd31bdc;hp=b45f8fed99c72733f6a9da03fd3037c7a19a4022;hpb=c17661b22323a66090ea91e04751aa17461b17c5;p=jalview.git

diff --git a/help/html/calculations/treeviewer.html b/help/html/calculations/treeviewer.html
index b45f8fe..2eaba4c 100755
--- a/help/html/calculations/treeviewer.html
+++ b/help/html/calculations/treeviewer.html
@@ -1,7 +1,7 @@
 <html>
 <!--
- * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
- * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2)
+ * Copyright (C) 2015 The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -28,12 +28,11 @@
   </p>
   <p>
     The tree viewing window is opened when a tree has been <a
-      href="tree.html"
-    >calculated from an alignment</a>, or imported via a file or web
-    service. It includes <a href="#menus">menus</a> for controlling
-    layout and file and figure creation, and enables various selection
-    and colouring operations on the associated sequences in the
-    alignment.
+      href="tree.html">calculated from an alignment</a>, or
+    imported via a file or web service. It includes <a href="#menus">menus</a>
+    for controlling layout and file and figure creation, and enables
+    various selection and colouring operations on the associated
+    sequences in the alignment.
   </p>
   <p>
     <strong><em>Selecting Sequence Leaf Nodes</em></strong><br>
@@ -95,23 +94,24 @@
     tree is rendered and labeled:
   <ul>
     <li><strong>Fit to Window</strong>
-    <p>The tree layout will be scaled to fit in the display window.
-        You may need to reduce the font size to minimise the leaf label
-        overlap when this option is selected.</p></li>
+      <p>The tree layout will be scaled to fit in the display
+        window. You may need to reduce the font size to minimise the
+        leaf label overlap when this option is selected.</p></li>
     <li><strong>Font Size ...</strong><em>n</em>
-    <p>
+      <p>
         Brings up a dialog box to set the font size for the leaf names.
         <em>n</em> is the current font size.
       </p></li>
     <li><strong>Show Distances</strong>
-    <p>Labels each branch or leaf with its associated branch length.</p></li>
+      <p>Labels each branch or leaf with its associated branch
+        length.</p></li>
     <li><strong>Show Bootstrap values</strong>
-    <p>Labels each branch or leaf with its associated bootstrap
+      <p>Labels each branch or leaf with its associated bootstrap
         value.</p></li>
     <li><strong>Mark unlinked leaves</strong>
-    <p>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>
+      <p>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>Sort Alignment By Tree</strong>
       <p>
         Sorts any associated alignment views using the current tree. (<em>Only
@@ -120,10 +120,9 @@
     <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.
+          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>
