+
+function toggleMenuVisibility(){
+ //alert("toggleMenuVisibility called!");
+
+ var menu = document.getElementsByClassName("biojs_msa_menubar");
+ var divToggleButton = document.getElementById("divToggleButton");
+ if(menu[0].style.display == 'block'){
+ menu[0].style.display = 'none';
+ divToggleButton.value="Show BioJs Menu";
+ }else{
+ menu[0].style.display = 'block';
+ divToggleButton.value="Hide BioJs Menu";
+ }
+}
+function openJalviewUsingCurrentUrl2(){
+var jnpl = "<!--"+
+"Hi!"+
+"If you have downloaded this file after pressing \"Launch Full Application\" from Jalview on a web page and you don't know what to do with this file, you must install Java from http://www.java.sun.com then try opening this file again."+
+" \n"+
+" JNLP generated by /jalviewServlet/services/launchAppDev"+
+" JNLP generated from http://www.jalview.org/builds/develop/webstart/jalview.jnlp"+
+"Available servlet parameters (please URLEncode):"+
+" open=<alignment file URL>"+
+" jvm-max-heap=heap size in M or G"+
+" features maps to '-features'"+
+" treeFile maps to '-tree'"+
+" tree maps to '-tree'"+
+" annotations maps to '-annotations'"+
+" colour maps to '-colour'"+
+" "+
+"-->"+
+"<?xml version=\"1.0\" encoding=\"UTF-8\"?><jnlp spec=\"1.0+\" codebase=\"http://www.jalview.org/builds/develop/webstart\"> <information> <title>Jalview</title> <vendor>The Barton Group</vendor> <homepage href=\"http://www.jalview.org\"/> <description>Jalview Multiple Alignment Editor</description> <description kind=\"short\">Jalview</description> <icon href=\"JalviewLogo_big.png\"/> <offline-allowed/> </information> <security> <all-permissions/> </security> <resources> <j2se version=\"1.7+\" initial-heap-size=\"10M\" max-heap-size=\"2G\"/> <jar href=\"jalview.jar\"/> <jar href=\"JGoogleAnalytics_0.3.jar\"/> <jar href=\"Jmol-12.2.4.jar\"/> <jar href=\"VARNAv3-91.jar\"/> <jar href=\"activation.jar\"/> <jar href=\"apache-mime4j-0.6.jar\"/> <jar href=\"axis.jar\"/> <jar href=\"castor-1.1-cycle-xml.jar\"/> <jar href=\"commons-codec-1.3.jar\"/> <jar href=\"commons-discovery.jar\"/> <jar href=\"commons-logging-1.1.1.jar\"/> <jar href=\"groovy-all-1.8.2.jar\"/> <jar href=\"httpclient-4.0.3.jar\"/> <jar href=\"httpcore-4.0.1.jar\"/> <jar href=\"httpmime-4.0.3.jar\"/> <jar href=\"jalview_jnlp_vm.jar\"/> <jar href=\"jaxrpc.jar\"/> <jar href=\"jdas-1.0.4.jar\"/> <jar href=\"jhall.jar\"/> <jar href=\"json_simple-1.1.jar\"/> <jar href=\"jsoup-1.8.1.jar\"/> <jar href=\"jswingreader-0.3.jar\"/> <jar href=\"log4j-to-slf4j-2.0-rc2.jar\"/> <jar href=\"mail.jar\"/> <jar href=\"miglayout-4.0-swing.jar\"/> <jar href=\"min-jabaws-client-2.1.0.jar\"/> <jar href=\"regex.jar\"/> <jar href=\"saaj.jar\"/> <jar href=\"slf4j-api-1.7.7.jar\"/> <jar href=\"slf4j-log4j12-1.7.7.jar\"/> <jar href=\"spring-core-3.0.5.RELEASE.jar\"/> <jar href=\"spring-web-3.0.5.RELEASE.jar\"/> <jar href=\"vamsas-client.jar\"/> <jar href=\"wsdl4j.jar\"/> <jar href=\"xercesImpl.jar\"/> <jar href=\"xml-apis.jar\"/> <property name=\"jalview.version\" value=\"Development Branch Build\"/> </resources>"+
+"<application-desc main-class=\"jalview.bin.Jalview\">"+
+"<argument>-open</argument>"+
+"<argument>file:///Users/tcnofoegbu/Documents/workspace/java/dev/jalview/examples/example_biojs.html</argument>"+
+"</application-desc>"+
+" <security>"+
+" <all-permissions/>"+
+" </security>"+
+"</jnlp>"
+
+var encodedUri = encodeURI(jnpl);
+window.open(encodedUri)
+//alert(jnpl)
+}
+