JAL-1422 remove SRS and expasy links and replace with EMBL-EBI Search and Uniprot...

[jalview.git] / examples / linkedapplets_ng.html

diff --git a/examples/linkedapplets_ng.html b/examples/linkedapplets_ng.html
index 80bda5e..3418068 100644 (file)
--- a/examples/linkedapplets_ng.html
+++ b/examples/linkedapplets_ng.html
@@ -167,7 +167,7 @@ document.onclick = mclose;
 <li><a href="jalviewLiteJs.html">Javascript API</a></li>
 <li><a href="formComplete.html">in-page API demo</a></li>
 <li class="jvlite-nav-small"><a href="linkedApplets_ng.html">Two JalviewLites demo</a></li>
-<li><a href="embeddedWJmol.html">Sequence And Structure demo</a></li>
+<li><a href="embeddedWJmol.html">Jalview and Jmol demo</a></li>
 </ul>
 </div>
 
@@ -175,13 +175,6 @@ document.onclick = mclose;
     <strong>JalviewLite Linked Applets Demo<br></strong>
     <p>The two applets below use <a href="JalviewLiteJs.html">JalviewLite's javascript API</a> to exchange events about the currently selected region and mouse position in the alignment.
     </p>
-    <p>See the other demonstration pages below to see the API in action:</p>
-    <ul>
-          <li><a href="formComplete.html">use Javascript to control and get data from JalviewLite</a></li>
-          <li><a href="embeddedWJmol.html">configure JalviewLite to talk to a Jmol applet on the page.</a></li>
-          <li><a href="javascriptLaunch.html">launch JalviewLite from a javascript button</a></li>
-          
-    </ul>
        <script> 
   var attributes = {
     code : 'jalview.bin.JalviewLite',
@@ -203,14 +196,12 @@ document.onclick = mclose;
     embedded : "true",
     showFullId : "false",
     RGB : "F2F2FF",
-    linkLabel_1 : "SRS",
-    linkUrl_1 : "http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[uniprot-all:$SEQUENCE_ID$]+-vn+2"
- 
+    linkLabel_1 : "EMBL-EBI Search",
+    linkUrl_1 : "http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"
     ,
     linkLabel_2 : "Uniprot"
- 
     ,
-    linkUrl_2 : "http://us.expasy.org/cgi-bin/niceprot.pl?$SEQUENCE_ID$",
+    linkUrl_2 : "http://www.uniprot.org/uniprot/$SEQUENCE_ID$",
     APPLICATION_URL : "http://www.jalview.org/services/launchApp"
   };
  
@@ -237,15 +228,13 @@ document.onclick = mclose;
     embedded : "true",
     showFullId : "false",
     RGB : "F2F2FF",
-    linkLabel_1 : "SRS",
-    linkUrl_1 : "http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[uniprot-all:$SEQUENCE_ID$]+-vn+2"
- 
+    linkLabel_1 : "EMBL-EBI Search",
+    linkUrl_1 : "http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"
     ,
     linkLabel_2 : "Uniprot"
- 
     ,
-    linkUrl_2 : "http://us.expasy.org/cgi-bin/niceprot.pl?$SEQUENCE_ID$",
-    APPLICATION_URL : "http://www.jalview.org/services/launchApp"
+    linkUrl_2 : "http://www.uniprot.org/uniprot/$SEQUENCE_ID$",
+   APPLICATION_URL : "http://www.jalview.org/services/launchApp"
   };
   deployJava.runApplet(attributes, parameters, '1.6');
 </script>
@@ -256,6 +245,36 @@ document.onclick = mclose;
         id="stdout" rows="20" cols="80">Messages  will appear here.</textarea></form>
       <br>
 </p>
+</div>
+</div>
+<div id ="footer">
+<div id="innerFooter">
+<div id="copyright"><p>Published under <a href="http://creativecommons.org/licenses/by-sa/3.0/">CC-SA 3.0</a></p></div>
+<div id="cite">
+<p>
+If you use Jalview in your work, please cite this publication:
+</p>
+<br />
+<p>
+Waterhouse, A.M., Procter, J.B., Martin, D.M.A, Clamp, M. and Barton, G. J. (2009)
+"Jalview Version 2 - a multiple sequence alignment editor and analysis workbench"
+Bioinformatics 25 (9) 1189-1191 <a href="http://dx.doi.org/10.1093/bioinformatics/btp033">doi: 10.1093/bioinformatics/btp033</a>
+</p>
+</div>
+</div>
+</div>
 
+<script type="text/javascript">
+    var gaJsHost = (("https:" == document.location.protocol) ?
+ "https://ssl." : "http://www.");
+    document.write(unescape("%3Cscript src=\'" + gaJsHost +
+ "google-analytics.com/ga.js\' type=\'text/javascript\'%3E%3C/script%3E"));
+</script>
+<script type="text/javascript">
+try{
+    var pageTracker = _gat._getTracker("'UA-9060947-1'");
+    pageTracker._trackPageview();
+} catch(err) {}
+</script>
 </body>
 </html>