1 <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
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
6 * This file is part of Jalview.
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.
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.
17 * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
20 <TITLE>Javascript Launch</TITLE>
21 <meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
23 <link href="css/reset.css" rel="stylesheet" type="text/css" />
24 <link href="css/style.css" rel="stylesheet" type="text/css" />
27 <link rel="stylesheet" type="text/css" href="css/ie6.css" />
31 <link rel="stylesheet" type="text/css" href="css/ie7.css" />
35 <script type="text/javascript">
48 if(ddmenuitem) ddmenuitem.style.visibility = 'hidden';
50 // get new layer and show it
51 ddmenuitem = document.getElementById(id);
52 ddmenuitem.style.visibility = 'visible';
58 if(ddmenuitem) ddmenuitem.style.visibility = 'hidden';
64 closetimer = window.setTimeout(mclose, timeout);
68 function mcancelclosetime()
72 window.clearTimeout(closetimer);
77 // close layer when click-out
78 document.onclick = mclose;
82 <!--//--><![CDATA[//><!--
83 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);})();
94 <div id="logo"><a href="http://www.jalview.org" title="Home"></a></div>
96 <li id="applet"><a href="applets.html" title="applet"></a></li>
97 <li id="desktop"><a href="../webstart/jalview.jnlp" title="desktop"></a></li>
106 <li><a href="http://www.jalview.org">Home</a></li>
107 <li><a href="http://www.jalview.org/about" onmouseover="mopen('m1')" onmouseout="mclosetime()">About</a>
108 <div id="m1" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
109 <a href="http://www.jalview.org/about/documentation">Documentation</a>
110 <a href="http://www.jalview.org/about/citation">Publications</a>
111 <a href="http://www.jalview.org/about/credits">Credits</a>
114 <li><a href="http://www.jalview.org/faq">FAQ</a></li>
115 <li><a href="http://www.jalview.org/community" onmouseover="mopen('m3')" onmouseout="mclosetime()" class="community">Community</a>
116 <div id="m3" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
117 <a href="http://www.jalview.org/mailman/listinfo/jalview-announce">News Mailing List</a>
118 <a href="http://www.jalview.org/mailman/listinfo/jalview-discuss">Discussion Mailing List</a>
119 <a href="http://www.jalview.org/community/links">Links</a>
120 <a href="http://www.jalview.org/community/community-news">Community News</a>
123 <li><a href="http://www.jalview.org/development" onmouseover="mopen('m4')" onmouseout="mclosetime()" class="development">Development</a>
124 <div id="m4" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
125 <a href="http://www.jalview.org/development/release-history">Release History</a>
126 <a href="http://issues.jalview.org">Jalview Bug Tracker</a>
127 <a href="http://source.jalview.org/gitweb/">Jalview Git Web</a>
128 <a href="http://www.jalview.org/development/development-news">Development News</a>
131 <li><a href="http://www.jalview.org/training" onmouseover="mopen('m5')" onmouseout="mclosetime()" class="training">Training</a>
132 <div id="m5" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
133 <a href="http://www.jalview.org/training/training-courses">Training Courses</a>
134 <a href="http://www.jalview.org/training/training-news">Training News</a>
137 <li><a href="http://www.jalview.org/download" class="download-right">Download</a></li>
139 <div style="clear:both"></div>
147 <li ><a href="u_applets.html">JalviewLite Examples</a></li>
148 <li ><a href="jalviewLiteJs.html">Javascript API</a></li>
149 <li ><a href="u_appletParameters.html">Applet Parameters</a></li>
150 <li ><a href="u_embedded.html">Embedded Alignment</a></li>
151 <li ><a href="u_embeddedWJmol.html">Jalview and Jmol</a></li>
152 <li ><a href="u_formComplete.html">Access from Javascript</a></li>
153 <li class="jvlite-nav-small"><a href="u_javascriptLaunch.html">Javascript Launch</a></li>
154 <li ><a href="u_linkedapplets_ng.html">Linked JalviewLite applets</a></li>
158 <div id="content" class="content">
161 <!-- boiler plate link to alternate demopage -->
163 <div style="width: 100%">
164 <div style="float:left;">
165 </div><div style="border: 2px solid black; align: left; float:right;">
166 Scary Java warnings ? Try <a href="javascriptLaunch.html">the signed applet demos</a>
170 <!-- content template start -->
171 <SCRIPT type="text/javascript">
173 // From http://snipplr.com/view.php?codeview&id=1272
174 //----------------------------------------
175 //Wrapper function for constructing a request object.
177 // reqType: The HTTP request type, such as GET or POST.
178 // url: The URL of the server program.
179 // asynch: Whether to send the request asynchronously or not.
180 //----------------------------------------
182 function httpRequest(reqType,url,asynch,respHandle) {
184 // Mozilla-based browsers
185 if (window.XMLHttpRequest) {
186 request = new XMLHttpRequest();
187 } else if (window.ActiveXObject) {
188 request = new ActiveXObject("Msxml2.XMLHTTP");
190 request = new ActiveXObject("Microsoft.XMLHTTP");
194 // Request could still be null if neither ActiveXObject
195 // initialization succeeded
197 // If the reqType param is POST, then the fifth arg is the POSTed data
198 if (reqType.toLowerCase() != "post") {
199 initReq(reqType, url, asynch, respHandle);
202 var args = arguments[5];
203 if (args != null && args.length > 0) {
204 initReq(reqType, url, asynch, respHandle, args);
208 alert("Your browser does not permit the use of all " +
209 "of this application's features!");
214 //----------------------------------------
215 //Initialize a request object that is already constructed
216 //----------------------------------------
218 function initReq(reqType, url, bool, respHandle) {
220 // Specify the function that will handle the HTTP response
221 request.onreadystatechange = respHandle;
222 request.open(reqType, url, bool);
223 // If the reqType param is POST, then the
224 // fifth argument to the function is the POSTed data
225 if (reqType.toLowerCase() == "post") {
226 // Set the Content-Type header for a POST request
227 request.setRequestHeader("Content-Type", "application/x-ww-form-urlencoded; charset=UTF-8");
228 request.send(arguments[4]);
233 alert("The application cannot contact the server at the moment. " +
234 "Please try again in a few seconds.\n" +
235 "Error detail: " + errv.message);
239 // jalview launching with fetched data
241 function startJalview(aligURL,title,alwvar) {
243 httpRequest("get",aligURL,true,function() {
244 if (request.readyState == 4) {
245 alignment = request.responseText;
246 eval("var "+alwvar+" = document.JalviewLite.loadAlignment(alignment,title)");
255 <applet name="JalviewLite" code="jalview.bin.JalviewLite"
256 archive="u_jalviewApplet.jar" width="0" height="0">
257 <param name="debug" value="true"/>
258 <param name="showbutton" value="false"/>
261 <h2>Javascript Launch Button</h2><p>The button below demonstrates how JalviewLite can be launched via a javascript action.</p>
263 <input type="button" name="Button1" value="Start"
264 onClick="startJalview('plantfdx.fa','Button1.alignment','alwvar')"/>
266 <!-- content template end -->
270 </div> <!-- end content div -->
272 </div> <!-- content -->
273 </div> <!-- pagewrap -->
275 <div id="innerFooter">
276 <div id="copyright"><p>Published under <a href="http://creativecommons.org/licenses/by-sa/3.0/">CC-SA 3.0</a></p></div>
279 If you use Jalview in your work, please cite this publication:
283 Waterhouse, A.M., Procter, J.B., Martin, D.M.A, Clamp, M. and Barton, G. J. (2009)
284 "Jalview Version 2 - a multiple sequence alignment editor and analysis workbench"
285 Bioinformatics 25 (9) 1189-1191 <a href="http://dx.doi.org/10.1093/bioinformatics/btp033">doi: 10.1093/bioinformatics/btp033</a>