1 <script src="javascript/deployJava.js"></script>
2 <script src="jmol/Jmol.js"></script>
3 <script src="javascript/jquery-1.4.4.min.js"></script>
4 <script src="javascript/jquery.timer.js"></script>
5 <script src="javascript/jquery.blockUI.js"></script>
6 <script src="javascript/jshashtable-2.1.js" language="javascript"></script>
7 <!-- <script src="archive-min.js" language="javascript"></script>
9 <script src="javascript/jalview.js" language="javascript"></script>
10 <script language="JavaScript">
11 // instead of this, we use a custom JmolApplet spec
12 // jmolInitialize('jmol');
13 jmolInitialize("","${content.jmol}");
16 var s1 = "ml:i@midd..", s2 = "atelcpoueau", s3 = "iomyob.neck", href="";
18 { href = href + s1.charAt(i) + s2.charAt(i) + s3.charAt(i);
25 function dbg(lvl,string) {
26 if (_console && lvl<=loglevel) {_console.value += string + "\n";}
28 var _lastTime=new Date();
41 var modeltofiles = new Array();
44 jvfollower = document.getElementById("jvA");
45 setConsole(document.getElementById("stdout"));
47 sep = jvfollower.getSeparator();
48 //jvapp.setSeparator(""+jvapp.getSeparator());
49 linkJvJmol(jvfollower, "jmolView", modeltofiles);
52 var _jvA=new Object();
54 code : 'jalview.bin.JalviewLite',
55 archive : '${content.jvl}',
63 java_arguments : "-Xmx256m",
64 externalstructureviewer : "true",
66 automaticScrolling : "true",
67 // <!-- defaultColour : "Strand Propensity", -->
68 file : "uniref50_mz.fa",
70 relaxedidmatch : "true",
74 showAnnotation : "false",
78 linkLabel_1 : "EMBL-EBI Search",
79 linkUrl_1 : "http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"
81 linkLabel_2 : "Uniprot"
83 linkUrl_2 : "http://www.uniprot.org/uniprot/$SEQUENCE_ID$",
84 APPLICATION_URL : "http://www.jalview.org/services/launchApp",
85 PDBfile : "1gaq.txt FER1_MAIZE",
86 permissions : "sandbox"
88 jmolSetCallback("hoverCallback","_jmolhover");
89 jmolSetCallback("pickCallback","_jmolpick");
90 modeltofiles+="1gaq.txt";