JAL-1668 updated documentation

[jalview.git] / help / html / features / chimera.html

diff --git a/help/html/features/chimera.html b/help/html/features/chimera.html
index 31ca419..11b43c8 100644 (file)
--- a/help/html/features/chimera.html
+++ b/help/html/features/chimera.html
@@ -32,7 +32,7 @@ id pop-up menu</a> (if you can't see this, then you need to <a
 sequence). Chimera is available from the Jalview desktop, provided Chimera has been separately installed.</p>
 <p>You can set a default choice of Jmol or Chimera structure viewer in <a href="preferences.html#structure"> Preferences</a>. 
 You can also optionally specify the path to the Chimera program here (if it differs from the standard paths searched by Jalview).
-<p>The following menu entries are provided for viewing structure data<br>
+<!-- <p>The following menu entries are provided for viewing structure data<br>
   <ul>
     <li>The <strong>&quot;Structure&#8594;View
         Structure&#8594;</strong> submenu allows a single PDB structure to be chosen
@@ -49,10 +49,10 @@ You can also optionally specify the path to the Chimera program here (if it diff
       currently selected sequence.<br /></li>
   </ul>
   <br> 
-</p>
+</p> -->
 <p><a name="align"><strong>Superposing structures based
 on their aligned sequences</strong></a><br>
-<p>If several structures are available on the alignment, you may add
+If several structures are available on the alignment, you may add
 additional structures to an existing Chimera view by selecting their entry
 in the appropriate pop-up menu. Jalview will ask you if you wish to add
 the structure to the existing alignment, and if you do, it will import
@@ -63,12 +63,12 @@ menu bar of the structure view window to superpose the structures using
 the updated alignment.<br>
 </p>
 <p><strong>Chimera Controls</strong><br>
-<p>The structure is by default rendered as a ribbon diagram. Moving the
+The structure is by default rendered as a ribbon diagram. Moving the
 mouse over the structure brings up tooltips giving the residue name, PDB
 residue number and chain code
 ([RES]Num:Chain). Moving the mouse over an
 associated residue in an alignment window highlights the associated
-atoms in the displayed structures. For comprehensive details of Chimera's commands, refer to the tool's Help menu.</p>
+atoms in the displayed structures. For comprehensive details of Chimera's commands, refer to the tool's Help menu.
 <p>Basic screen operations (see <a href="http://www.cgl.ucsf.edu/chimera/current/docs/UsersGuide/mouse.html">Chimera help</a> 
 (http://www.cgl.ucsf.edu/chimera/current/docs/UsersGuide/mouse.html) for full details).
 <table border="1">