JAL-4012 - JAL-4020 release notes and a bit of ‘troubleshooting’ documentation

[jalview.git] / examples / appletParameters.html

diff --git a/examples/appletParameters.html b/examples/appletParameters.html
index 6ead5e6..04cc235 100644 (file)
--- a/examples/appletParameters.html
+++ b/examples/appletParameters.html
@@ -91,8 +91,9 @@ the applet can be interacted with <em>via</em> its
             <td>jnetfile</td>
             <td>fileName</td>
             <td>Secondary structure predictions from a <a
-            href="http://www.compbio.dundee.ac.uk/~www-jpred/">Jnet</a> Concise 
-              file will be added to the first sequence in the alignment.</td>
+            href="http://www.compbio.dundee.ac.uk/~www-jpred/">JPred</a> Concise 
+              file will be added to the first sequence in the alignment.<br/>
+              <em>jpredfile</em> can be used interchangeably with this parameter.</td>
           </tr>
           <tr> 
             <td>PDBfile(x)</td>
@@ -158,6 +159,11 @@ the applet can be interacted with <em>via</em> its
             <td>Default is true.</td>
           </tr>
           <tr> 
+            <td>showOccupancy</td>
+            <td>true <em>or</em> false</td>
+            <td>Default is true.</td>
+          </tr>
+          <tr> 
             <td>sortBy</td>
             <td> Id <em>, </em> Pairwise Identity<em>, or</em> Length</td>
             <td> Sorts the alignment on startup</td>