From ef4e1e730bcd4a6ae92f422f8877fd4026cbde3b Mon Sep 17 00:00:00 2001
From: jprocter <jprocter@compbio.dundee.ac.uk>
Date: Thu, 21 Jul 2011 16:49:05 +0100
Subject: [PATCH] refined applet example on examples page

---
 examples/applets.html |   13 +++++--------
 1 file changed, 5 insertions(+), 8 deletions(-)

diff --git a/examples/applets.html b/examples/applets.html
index 21ed203..d67c8b1 100755
--- a/examples/applets.html
+++ b/examples/applets.html
@@ -29,19 +29,17 @@
                     <td width="100"> <applet code="jalview.bin.JalviewLite"
 			       	width="140" height="35"
 			       	archive="jalviewApplet.jar">
-                        <param name="file" value="uniref50.fa">
-                        <param name="treeFile" value="ferredoxin.nw">
+						<param name="file" value="uniref50.fa">
                        <param name="treeFile" value="ferredoxin.nw">
                         <param name="userDefinedColour" value="C=yellow; R,K,H=FF5555; D,E=5555FF">
                         <param name="showFullId" value="false">
-                        <param name="RGB"  value="F2F2FF">
-                        <param name="linkLabel_1" value="SRS">
+                        <param name="RGB"  value="F2F2FF">
                        <param name="sortByTree" value="True">
                        <param name="showSequenceLogo" value="true">
                        <param name="showGroupConsensus" value="true">
                        <param name="linkLabel_1" value="SRS">
                         <param name="linkUrl_1" value="http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[uniprot-all:$SEQUENCE_ID$]+-vn+2">
                         <param name="linkLabel_2" value="Uniprot">
                         <param name="linkUrl_2" value="http://us.expasy.org/cgi-bin/niceprot.pl?$SEQUENCE_ID$">
 						<param name="APPLICATION_URL" value="http://www.jalview.org/services/launchApp">
                       </applet></td>
                     <td width="165">User Defined Colours, loads an associated Newick
-                      format tree file</td>
+                      format tree file which is used to sort the alignment, and group consensus and sequence logos are shown below the alignment.</td>
                   </tr>
                 </table></td>
             </tr>
@@ -74,7 +72,7 @@
                 </table></td>
             </tr>
           </table>
-          <p>&nbsp;</p>
+            <p>&nbsp;</p>
           <table width="300" border="1" cellspacing="0" cellpadding="0">
             <tr>
               <td><table width="300" border="0" cellspacing="0" cellpadding="0">
@@ -132,6 +130,5 @@
                   </tr>
                 </table></td>
             </tr>
-          </table>
          
-        </div>
        <p>&nbsp;</p>
          <p>For more JalviewLite examples, follow the links below.
          <ul>
          <li><a href="embedded.html">JalviewLite embedded in the web page</a></li>
          <li><a href="formComplete.html">use Javascript to control and get data from JalviewLite</a></li>
          <li><a href="linkedapplets_ng.html">use Javascript to make two jalviewLite instances talk to each other</a></li>
          <li><a href="embeddedWJmol.html">configure JalviewLite to talk to a Jmol applet on the page.</a></li>
          </ul>
+          </table>
        </div>
        <p>&nbsp;</p>
          <p>For more JalviewLite examples, follow the links below.
          <ul>
          <li><a href="embedded.html">JalviewLite embedded in the web page</a></li>
          <li><a href="formComplete.html">use Javascript to control and get data from JalviewLite</a></li>
          <li><a href="linkedapplets_ng.html">use Javascript to make two jalviewLite instances talk to each other</a></li>
          <li><a href="embeddedWJmol.html">configure JalviewLite to talk to a Jmol applet on the page.</a></li>
          </ul>
         <!-- InstanceEndEditable --></td>
    </tr>
  </table>
</div>
</body>
<!-- InstanceEnd --></html>
\ No newline at end of file
-- 
1.7.10.2