X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2Fapplets.html;h=343108c85c2930c433e60d59322a97b07853fab4;hb=b6acaa87c22c1d31deb3f9b87a143def43ae34b7;hp=bb6bb103485b914fe38c0455b3480429096f5e5b;hpb=211d3c57e8cd7dd1529a6ecd3ba15372d35baff8;p=jalview.git

diff --git a/examples/applets.html b/examples/applets.html
index bb6bb10..343108c 100755
--- a/examples/applets.html
+++ b/examples/applets.html
@@ -1,7 +1,7 @@
 <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
 <!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -189,7 +189,7 @@ Try out JalviewLite by pressing one of the buttons below.<br/>
       <td width="10%" valign="center">
 	<applet
    code="jalview.bin.JalviewLite" width="140" height="35"
-   archive="jalviewApplet.jar">
+   archive="jalviewApplet.jar,JmolApplet-12.2.4.jar">
 <param name="permissions" value="sandbox"/>
 <param name="file" value="uniref50.fa"/>
 <param name="treeFile" value="ferredoxin.nw"/>
@@ -215,7 +215,7 @@ Try out JalviewLite by pressing one of the buttons below.<br/>
     <tr>
       <td width="10%" valign="center"><applet
    code="jalview.bin.JalviewLite" width="140" height="35"
-   archive="jalviewApplet.jar">
+   archive="jalviewApplet.jar,JmolApplet-12.2.4.jar">
 <param name="permissions" value="sandbox"/>
 <param name="file" value="uniref50.fa"/>
 <param name="features" value="exampleFeatures.txt"/>
@@ -266,7 +266,7 @@ Try out JalviewLite by pressing one of the buttons below.<br/>
     <tr>
       <td width="10%" valign="center"><applet
    code="jalview.bin.JalviewLite" width="140" height="35"
-   archive="jalviewApplet.jar">
+   archive="jalviewApplet.jar,JmolApplet-12.2.4.jar">
 <param name="permissions" value="sandbox"/>
 <param name="file" value="jpred_msa.fasta"/>
 <param name="jnetfile" value="jpred_msa.seq.concise"/>
@@ -297,7 +297,7 @@ Try out JalviewLite by pressing one of the buttons below.<br/>
     <tr>
       <td width="10%" valign="center"><applet
    code="jalview.bin.JalviewLite" width="140" height="35"
-   archive="jalviewApplet.jar">
+   archive="jalviewApplet.jar,JmolApplet-12.2.4.jar">
 <param name="permissions" value="sandbox"/>
 <param name="file" value="RF00031_folded.stk"/>
 <param name="showFullId" value="false"/>
@@ -313,6 +313,31 @@ Try out JalviewLite by pressing one of the buttons below.<br/>
 	secondary structure annotation</td>
     </tr>
   </table>
+  <p>
+    <h2>Linked amino acid and cDNA alignments for homologous proteins</h2>
+  </p>
+  <table width="90%">
+    <tr>
+      <td width="10%" valign="center"><applet
+   code="jalview.bin.JalviewLite" width="140" height="35"
+   archive="jalviewApplet.jar,JmolApplet-12.2.4.jar">
+<param name="permissions" value="sandbox"/>
+<param name="file" value="estrogenReceptorCdna.fa"/>
+<param name="file2" value="estrogenReceptorProtein.fa"/>
+<param name="scaleProteinAsCdna" value="true"/>
+<param name="showFullId" value="false"/>
+<param name="windowHeight" value="300"/>
+<param name="windowWidth" value="800"/>
+<param name="showAnnotation" value="true"/>
+<param name="showSequenceLogo" value="true"/>
+<param name="defaultColour" value="Purine/Pyrimidine"/>
+   <param name="APPLICATION_URL"
+     value="http://www.jalview.org/services/launchApp"/>
+</applet>
+</td>
+      <td valign="center">Displays a split window view of protein and its related cDNA</td>
+    </tr>
+  </table>
 </div>
 <!-- content template end -->
 
