examples/javascriptLaunch.html

   1 <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
   2 <!--
   3  * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
   4  * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
   5  *
   6  * This file is part of Jalview.
   7  *
   8  * Jalview is free software: you can redistribute it and/or
   9  * modify it under the terms of the GNU General Public License
  10  * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
  11  *
  12  * Jalview is distributed in the hope that it will be useful, but
  13  * WITHOUT ANY WARRANTY; without even the implied warranty
  14  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  15  * PURPOSE.  See the GNU General Public License for more details.
  16  *
  17  * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
  18 -->
  19 <html xmlns="http://www.w3.org/1999/xhtml">
  20 <head>
  21   <head><title>Opening JalviewLite from Javascript</title>
  22   <meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
  23
  24  <link href="css/reset.css" rel="stylesheet" type="text/css" />
  25  <link href="css/style.css" rel="stylesheet" type="text/css" />
  26
  27   <!--[if IE 6]>
  28  <link rel="stylesheet" type="text/css" href="css/ie6.css" />
  29 <![endif]-->
  30
  31 <!--[if IE 7]>
  32  <link rel="stylesheet" type="text/css" href="css/ie7.css" />
  33 <![endif]-->
  34
  35 <!-- dd menu -->
  36 <script type="text/javascript">
  37 <!--
  38 var timeout         = 500;
  39 var closetimer  = 0;
  40 var ddmenuitem      = 0;
  41
  42 // open hidden layer
  43 function mopen(id)
  44 {
  45  // cancel close timer
  46  mcancelclosetime();
  47
  48  // close old layer
  49  if(ddmenuitem) ddmenuitem.style.visibility = 'hidden';
  50
  51  // get new layer and show it
  52  ddmenuitem = document.getElementById(id);
  53  ddmenuitem.style.visibility = 'visible';
  54
  55 }
  56 // close showed layer
  57 function mclose()
  58 {
  59  if(ddmenuitem) ddmenuitem.style.visibility = 'hidden';
  60 }
  61
  62 // go close timer
  63 function mclosetime()
  64 {
  65  closetimer = window.setTimeout(mclose, timeout);
  66 }
  67
  68 // cancel close timer
  69 function mcancelclosetime()
  70 {
  71  if(closetimer)
  72  {
  73   window.clearTimeout(closetimer);
  74   closetimer = null;
  75  }
  76 }
  77
  78 // close layer when click-out
  79 document.onclick = mclose;
  80 // -->
  81 </script>
  82
  83 </head>
  84
  85
  86 <body>
  87
  88
  89 <div id="header">
  90 <div id="logo"><a href="/" title="Home"></a></div>
  91 <ul id="buttons">
  92 <li id="applet"><a href="applets.html" title="applet"></a></li>
  93 <li id="desktop"><a href="/webstart/jalview.jnlp" title="desktop"></a></li>
  94 </ul>
  95 </div>
  96
  97
  98 <div id ="nav">
  99 <div id="navInner">
 100
 101 <ul id="sddm">
 102  <li><a href="#">Home</a></li>
 103  <li><a href="#" onmouseover="mopen('m1')" onmouseout="mclosetime()">About</a>
 104   <div id="m1" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
 105   <a href="#">Documentation</a>
 106   <a href="#">Publications</a>
 107   <a href="#">Credits</a>
 108   <a href="#">Screenshots</a>
 109   </div>
 110  </li>
 111  <li><a href="#">FAQ</a></li>
 112  <li><a href="#" onmouseover="mopen('m3')" onmouseout="mclosetime()" class="community">Community</a>
 113   <div id="m3" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
 114   <a href="#">News Mailing List</a>
 115   <a href="#">Discussion Mailing List</a>
 116   <a href="#">Links</a>
 117   <a href="#">Community News</a>
 118   </div>
 119  </li>
 120  <li><a href="#" onmouseover="mopen('m4')" onmouseout="mclosetime()" class="development">Development</a>
 121   <div id="m4" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
 122   <a href="#">Release History</a>
 123   <a href="#">Jalview Bug Tracker</a>
 124   <a href="#">Jalview Git Web</a>
 125   <a href="#">Development News</a>
 126   </div>
 127  </li>
 128  <li><a href="#" onmouseover="mopen('m5')" onmouseout="mclosetime()" class="training">Training</a>
 129   <div id="m5" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
 130   <a href="#">Training Courses</a>
 131   <a href="#">Training News</a>
 132   </div>
 133  </li>
 134  <li><a href="#" class="download-right">Download</a></li>
 135 </ul>
 136 <div style="clear:both"></div>
 137 </div>
 138
 139 </div>
 140
 141
 142 <div id="pageWrap">
 143
 144 <div id="sideNav">
 145 <ul>
 146 <li><a href="applets.html">JalviewLite Examples</a></li>
 147 <li><a href="appletParameters.html">Applet Parameters</a></li>
 148 <li><a href="jalviewLiteJs.html">Javascript API</a><ul><li class="jvlite-nav-small"><a href="javascriptLaunch.html">JalviewLite Button</a></li></ul></li>
 149 <li><a href="formComplete.html">in-page API demo</a></li>
 150 <li><a href="linkedApplets_ng.html">Two JalviewLites demo</a></li>
 151 <li><a href="embeddedWJmol.html">Jalview and Jmol demo</a></li>
 152 </ul>
 153 </div>
 154
 155 <div id="content" class="content">
 156   <SCRIPT type="text/javascript">
 157   /* <![CDATA[ // */
 158 // From http://snipplr.com/view.php?codeview&id=1272
 159 //----------------------------------------
 160 //Wrapper function for constructing a request object.
 161 //      Parameters:
 162 //              reqType: The HTTP request type, such as GET or POST.
 163 //              url: The URL of the server program.
 164 //              asynch: Whether to send the request asynchronously or not.
 165 //----------------------------------------
 166
 167 function httpRequest(reqType,url,asynch,respHandle) {
 168
 169         // Mozilla-based browsers
 170         if (window.XMLHttpRequest) {
 171                 request = new XMLHttpRequest();
 172         } else if (window.ActiveXObject) {
 173                 request = new ActiveXObject("Msxml2.XMLHTTP");
 174                 if (!request) {
 175                         request = new ActiveXObject("Microsoft.XMLHTTP");
 176                 }
 177         }
 178
 179         // Request could still be null if neither ActiveXObject
 180         //   initialization succeeded
 181         if (request) {
 182                 // If the reqType param is POST, then the fifth arg is the POSTed data
 183                 if (reqType.toLowerCase() != "post") {
 184                         initReq(reqType, url, asynch, respHandle);
 185                 } else {
 186                         // The POSTed data
 187                         var args = arguments[5];
 188                         if (args != null && args.length > 0) {
 189                                 initReq(reqType, url, asynch, respHandle, args);
 190                         }
 191                 }
 192         } else {
 193                 alert("Your browser does not permit the use of all " +
 194                         "of this application's features!");
 195         }
 196
 197 }
 198
 199 //----------------------------------------
 200 //Initialize a request object that is already constructed
 201 //----------------------------------------
 202
 203 function initReq(reqType, url, bool, respHandle) {
 204         try {
 205                 // Specify the function that will handle the HTTP response
 206                 request.onreadystatechange = respHandle;
 207                 request.open(reqType, url, bool);
 208                 // If the reqType param is POST, then the
 209                 //   fifth argument to the function is the POSTed data
 210                 if (reqType.toLowerCase() == "post") {
 211                         // Set the Content-Type header for a POST request
 212                         request.setRequestHeader("Content-Type", "application/x-ww-form-urlencoded; charset=UTF-8");
 213                         request.send(arguments[4]);
 214                 } else {
 215                         request.send(null);
 216                 }
 217         } catch (errv) {
 218                 alert("The application cannot contact the server at the moment. " +
 219                         "Please try again in a few seconds.\n" +
 220                         "Error detail: " + errv.message);
 221         }
 222 }
 223
 224 // jalview launching with fetched data
 225
 226 function startJalview(aligURL,title,alwvar) {
 227                 var aligment = "";
 228                 httpRequest("get",aligURL,true,function() {
 229                                 if (request.readyState == 4) {
 230                                         alignment = request.responseText;
 231                                         eval("var "+alwvar+" = document.JalviewLite.loadAlignment(alignment,title)");
 232                                 }
 233                 })
 234
 235 }
 236
 237 /* ]]> */
 238 </SCRIPT>
 239   <form name="Form1">
 240 <applet name="JalviewLite"  code="jalview.bin.JalviewLite"
 241 archive="jalviewApplet.jar" width="0" height="0">
 242 <param name="debug" value="true"/>
 243 <param name="showbutton" value="false"/>
 244 </applet>
 245
 246
 247   <input type="button" name="Button1" value="Start"
 248 onClick="startJalview('plantfdx.fa','Button1.alignment','alwvar')"/>
 249   </form>
 250
 251
 252 </div>
 253 </div>
 254 <div id ="footer">
 255 <div id="innerFooter">
 256 <div id="copyright"><p>Published under <a href="http://creativecommons.org/licenses/by-sa/3.0/">CC-SA 3.0</a></p></div>
 257 <div id="cite">
 258 <p>
 259 If you use Jalview in your work, please cite this publication:
 260 </p>
 261 <br />
 262 <p>
 263 Waterhouse, A.M., Procter, J.B., Martin, D.M.A, Clamp, M. and Barton, G. J. (2009)
 264 "Jalview Version 2 - a multiple sequence alignment editor and analysis workbench"
 265 Bioinformatics 25 (9) 1189-1191 <a href="http://dx.doi.org/10.1093/bioinformatics/btp033">doi: 10.1093/bioinformatics/btp033</a>
 266 </p>
 267 </div>
 268 </div>
 269 </div>
 270
 271 <script type="text/javascript">
 272     var gaJsHost = (("https:" == document.location.protocol) ?
 273  "https://ssl." : "http://www.");
 274     document.write(unescape("%3Cscript src=\'" + gaJsHost +
 275  "google-analytics.com/ga.js\' type=\'text/javascript\'%3E%3C/script%3E"));
 276 </script>
 277 <script type="text/javascript">
 278 try{
 279     var pageTracker = _gat._getTracker("'UA-9060947-1'");
 280     pageTracker._trackPageview();
 281 } catch(err) {}
 282 </script>
 283 </body>
 284 </head>
 285 </html>