examples/javascriptLaunch.html

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   3  * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
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   6  * This file is part of Jalview.
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   8  * Jalview is free software: you can redistribute it and/or
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  10  * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
  11  *
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  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  * The Jalview Authors are detailed in the 'AUTHORS' file.
  19 -->
  20 <head>
  21   <TITLE>Javascript Launch</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" />
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  26
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  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
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  52         ddmenuitem = document.getElementById(id);
  53         ddmenuitem.style.visibility = 'visible';
  54
  55         }
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  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   <script>
  83     <!--//--><![CDATA[//><!--
  84 var _gaq = _gaq || [];_gaq.push(["_setAccount", "UA-9060947-1"]);_gaq.push(["_trackPageview"]);(function() {var ga = document.createElement("script");ga.type = "text/javascript";ga.async = true;ga.src = ("https:" == document.location.protocol ? "https://ssl" : "http://www") + ".google-analytics.com/ga.js";var s = document.getElementsByTagName("script")[0];s.parentNode.insertBefore(ga, s);})();
  85 //--><!]]>
  86   </script>
  87
  88 </head>
  89
  90
  91 <body>
  92
  93
  94   <div id="header">
  95     <div id="logo"><a href="http://www.jalview.org" title="Home"></a></div>
  96     <ul id="buttons">
  97       <li id="applet"><a href="applets.html" title="applet"></a></li>
  98       <li id="desktop"><a href="../webstart/jalview.jnlp" title="desktop"></a></li>
  99     </ul>
 100   </div>
 101
 102
 103   <div id ="nav">
 104     <div id="navInner">
 105
 106       <ul id="sddm">
 107         <li><a href="http://www.jalview.org">Home</a></li>
 108         <li><a href="http://www.jalview.org/about" onmouseover="mopen('m1')" onmouseout="mclosetime()">About</a>
 109           <div id="m1" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
 110             <a href="http://www.jalview.org/about/documentation">Documentation</a>
 111             <a href="http://www.jalview.org/about/citation">Publications</a>
 112             <a href="http://www.jalview.org/about/credits">Credits</a>
 113           </div>
 114         </li>
 115         <li><a href="http://www.jalview.org/faq">FAQ</a></li>
 116         <li><a href="http://www.jalview.org/community" onmouseover="mopen('m3')" onmouseout="mclosetime()" class="community">Community</a>
 117           <div id="m3" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
 118             <a href="http://www.jalview.org/mailman/listinfo/jalview-announce">News Mailing List</a>
 119             <a href="http://www.jalview.org/mailman/listinfo/jalview-discuss">Discussion Mailing List</a>
 120             <a href="http://www.jalview.org/community/links">Links</a>
 121             <a href="http://www.jalview.org/community/community-news">Community News</a>
 122           </div>
 123         </li>
 124         <li><a href="http://www.jalview.org/development" onmouseover="mopen('m4')" onmouseout="mclosetime()" class="development">Development</a>
 125           <div id="m4" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
 126             <a href="http://www.jalview.org/development/release-history">Release History</a>
 127             <a href="http://issues.jalview.org">Jalview Bug Tracker</a>
 128             <a href="http://source.jalview.org/gitweb/">Jalview Git Web</a>
 129             <a href="http://www.jalview.org/development/development-news">Development News</a>
 130           </div>
 131         </li>
 132         <li><a href="http://www.jalview.org/training" onmouseover="mopen('m5')" onmouseout="mclosetime()" class="training">Training</a>
 133           <div id="m5" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
 134             <a href="http://www.jalview.org/training/training-courses">Training Courses</a>
 135             <a href="http://www.jalview.org/training/training-news">Training News</a>
 136           </div>
 137         </li>
 138         <li><a href="http://www.jalview.org/download" class="download-right">Download</a></li>
 139       </ul>
 140       <div style="clear:both"></div>
 141     </div>
 142
 143   </div>
 144 <div id="pageWrap">
 145
 146 <div id="sideNav">
 147   <ul>
 148       <li ><a href="applets.html">JalviewLite Examples</a></li>
 149       <li ><a href="jalviewLiteJs.html">Javascript API</a></li>
 150       <li ><a href="appletParameters.html">Applet Parameters</a></li>
 151       <li ><a href="embedded.html">Embedded Alignment</a></li>
 152       <li ><a href="embeddedWJmol.html">Jalview and Jmol</a></li>
 153       <li ><a href="formComplete.html">Access from Javascript</a></li>
 154       <li class="jvlite-nav-small"><a href="javascriptLaunch.html">Javascript Launch</a></li>
 155       <li ><a href="linkedapplets_ng.html">Linked JalviewLites</a></li>
 156   </ul>
 157 </div>
 158
 159 <div id="content" class="content">
 160
 161
 162 <!-- boiler plate link to alternate demopage -->
 163
 164 <div style="width: 100%">
 165 <div style="width:35%; align:left; float:right;">
 166 <div style="margin:8px; padding:8px; border: 2px solid black; align: center; float:center;">
 167  Examples aren't working ?<br/>Try <a href="u_javascriptLaunch.html">the unsigned applet demos</a>
 168 </div>
 169 <div style="margin:8px; padding:10px; align: left;">
 170 <p>Quick Links to jars for example:<br/><a href="jalviewApplet.jar">jalviewApplet.jar</a> and <a href="JmolApplet-12.2.4.jar">JmolApplet.jar</a>
 171 </p></div>
 172 </div>
 173 </div>
 174
 175 <!-- content template start -->
 176   <SCRIPT type="text/javascript">
 177   /* <![CDATA[ // */
 178 // From http://snipplr.com/view.php?codeview&id=1272
 179 //----------------------------------------
 180 //Wrapper function for constructing a request object.
 181 //      Parameters:
 182 //              reqType: The HTTP request type, such as GET or POST.
 183 //              url: The URL of the server program.
 184 //              asynch: Whether to send the request asynchronously or not.
 185 //----------------------------------------
 186
 187 function httpRequest(reqType,url,asynch,respHandle) {
 188
 189         // Mozilla-based browsers
 190         if (window.XMLHttpRequest) {
 191                 request = new XMLHttpRequest();
 192         } else if (window.ActiveXObject) {
 193                 request = new ActiveXObject("Msxml2.XMLHTTP");
 194                 if (!request) {
 195                         request = new ActiveXObject("Microsoft.XMLHTTP");
 196                 }
 197         }
 198
 199         // Request could still be null if neither ActiveXObject
 200         //   initialization succeeded
 201         if (request) {
 202                 // If the reqType param is POST, then the fifth arg is the POSTed data
 203                 if (reqType.toLowerCase() != "post") {
 204                         initReq(reqType, url, asynch, respHandle);
 205                 } else {
 206                         // The POSTed data
 207                         var args = arguments[5];
 208                         if (args != null && args.length > 0) {
 209                                 initReq(reqType, url, asynch, respHandle, args);
 210                         }
 211                 }
 212         } else {
 213                 alert("Your browser does not permit the use of all " +
 214                         "of this application's features!");
 215         }
 216
 217 }
 218
 219 //----------------------------------------
 220 //Initialize a request object that is already constructed
 221 //----------------------------------------
 222
 223 function initReq(reqType, url, bool, respHandle) {
 224         try {
 225                 // Specify the function that will handle the HTTP response
 226                 request.onreadystatechange = respHandle;
 227                 request.open(reqType, url, bool);
 228                 // If the reqType param is POST, then the
 229                 //   fifth argument to the function is the POSTed data
 230                 if (reqType.toLowerCase() == "post") {
 231                         // Set the Content-Type header for a POST request
 232                         request.setRequestHeader("Content-Type", "application/x-ww-form-urlencoded; charset=UTF-8");
 233                         request.send(arguments[4]);
 234                 } else {
 235                         request.send(null);
 236                 }
 237         } catch (errv) {
 238                 alert("The application cannot contact the server at the moment. " +
 239                         "Please try again in a few seconds.\n" +
 240                         "Error detail: " + errv.message);
 241         }
 242 }
 243
 244 // jalview launching with fetched data
 245
 246 function startJalview(aligURL,title,alwvar) {
 247                 var aligment = "";
 248                 httpRequest("get",aligURL,true,function() {
 249                                 if (request.readyState == 4) {
 250                                         alignment = request.responseText;
 251                                         eval("var "+alwvar+" = document.JalviewLite.loadAlignment(alignment,title)");
 252                                 }
 253                 })
 254
 255 }
 256
 257 /* ]]> */
 258 </SCRIPT>
 259   <form name="Form1">
 260 <applet name="JalviewLite"  code="jalview.bin.JalviewLite"
 261 archive="jalviewApplet.jar" width="0" height="0">
 262 <param name="debug" value="true"/>
 263 <param name="showbutton" value="false"/>
 264 </applet>
 265
 266 <h2>Javascript Launch Button</h2><p>The button below demonstrates how JalviewLite can be launched via a javascript action.</p>
 267
 268   <input type="button" name="Button1" value="Start"
 269 onClick="startJalview('plantfdx.fa','Button1.alignment','alwvar')"/>
 270   </form>
 271 <!-- content template end -->
 272
 273
 274
 275 </div> <!-- end content div -->
 276
 277 </div> <!-- content -->
 278 </div> <!-- pagewrap -->
 279 <div id ="footer">
 280 <div id="innerFooter">
 281 <div id="copyright"><p>Published under <a href="http://creativecommons.org/licenses/by-sa/3.0/">CC-SA 3.0</a></p></div>
 282 <div id="cite">
 283 <p>
 284 If you use Jalview in your work, please cite this publication:
 285 </p>
 286 <br />
 287 <p>
 288 Waterhouse, A.M., Procter, J.B., Martin, D.M.A, Clamp, M. and Barton, G. J. (2009)
 289 "Jalview Version 2 - a multiple sequence alignment editor and analysis workbench"
 290 Bioinformatics 25 (9) 1189-1191 <a href="http://dx.doi.org/10.1093/bioinformatics/btp033">doi: 10.1093/bioinformatics/btp033</a>
 291 </p>
 292 </div>
 293 </div>
 294 </div>
 295 </body>
 296 </html>