examples/formComplete.html

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   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
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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     *
  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 <head>
  20   <TITLE>Access from Javascript</TITLE>
  21   <meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
  22
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  33
  34   <!-- dd menu -->
  35   <script type="text/javascript">
  36     <!--
  37         var timeout         = 500;
  38         var closetimer  = 0;
  39         var ddmenuitem      = 0;
  40
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  42         function mopen(id)
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  51         ddmenuitem = document.getElementById(id);
  52         ddmenuitem.style.visibility = 'visible';
  53
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  56         function mclose()
  57         {
  58         if(ddmenuitem) ddmenuitem.style.visibility = 'hidden';
  59         }
  60
  61         // go close timer
  62         function mclosetime()
  63         {
  64         closetimer = window.setTimeout(mclose, timeout);
  65         }
  66
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  68         function mcancelclosetime()
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  71         {
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  73         closetimer = null;
  74         }
  75         }
  76
  77         // close layer when click-out
  78         document.onclick = mclose;
  79         // -->
  80   </script>
  81   <script>
  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);})();
  84 //--><!]]>
  85   </script>
  86
  87 </head>
  88
  89
  90 <body>
  91
  92
  93   <div id="header">
  94     <div id="logo"><a href="http://www.jalview.org" title="Home"></a></div>
  95     <ul id="buttons">
  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>
  98     </ul>
  99   </div>
 100
 101
 102   <div id ="nav">
 103     <div id="navInner">
 104
 105       <ul id="sddm">
 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>
 112           </div>
 113         </li>
 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>
 121           </div>
 122         </li>
 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>
 129           </div>
 130         </li>
 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>
 135           </div>
 136         </li>
 137         <li><a href="http://www.jalview.org/download" class="download-right">Download</a></li>
 138       </ul>
 139       <div style="clear:both"></div>
 140     </div>
 141
 142   </div>
 143 <div id="pageWrap">
 144
 145 <div id="sideNav">
 146   <ul>
 147       <li ><a href="applets.html">JalviewLite Examples</a></li>
 148       <li ><a href="jalviewLiteJs.html">Javascript API</a></li>
 149       <li ><a href="appletParameters.html">Applet Parameters</a></li>
 150       <li ><a href="embedded.html">Embedded Alignment</a></li>
 151       <li ><a href="embeddedWJmol.html">Jalview and Jmol</a></li>
 152       <li class="jvlite-nav-small"><a href="formComplete.html">Access from Javascript</a></li>
 153       <li ><a href="javascriptLaunch.html">Javascript Launch</a></li>
 154       <li ><a href="linkedapplets_ng.html">Linked JalviewLites</a></li>
 155   </ul>
 156 </div>
 157
 158 <div id="content" class="content">
 159
 160
 161 <!-- boiler plate link to alternate demopage -->
 162
 163 <div style="width: 100%">
 164 <div style="width:35%; align:left; float:right;">
 165 <div style="margin:8px; padding:8px; border: 2px solid black; align: center; float:center;">
 166  Examples aren't working ?<br/>Try <a href="u_formComplete.html">the unsigned applet demos</a>
 167 </div>
 168 <div style="margin:8px; padding:10px; align: left;">
 169 <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>
 170 </p></div>
 171 </div>
 172 </div>
 173
 174 <!-- content template start -->
 175 <h2><a href="jalviewLiteJs.html">JalviewLite API</a> Demo</h2>
 176 <p>Using the Javascript API to fill out forms using data from JalviewLite
 177 <br/>Click the Javascript buttons below to interact with the Applet
 178 instance on the page.</p>
 179 View the source in your browser to see how it has been done. <br/>
 180 <a name="api">View the full <a href="jalviewLiteJs.html">JalviewLite API documentation</a>.</a>
 181 <applet code="jalview.bin.JalviewLite" width="0" height="0"
 182         archive="jalviewApplet.jar" name="Jalview">
 183
 184   <param name="file" value="plantfdx.fa"/>
 185   <param name="features" value="plantfdx.features"/>
 186   <param name="wrap" value="true"/>
 187   <param name="showAnnotation" value="false"/>
 188   <param name="windowHeight" value="500"/>
 189   <param name="windowWidth" value="650"/>
 190   <param name="showFullId" value="false"/>
 191   <param name="linkLabel_1" value="Uniprot"/>
 192   <param name="linkUrl_1"
 193          value="http://www.uniprot.org/uniprot/$SEQUENCE_ID$"/>
 194   <param name="linkLabel_2" value="Expasy">
 195   <param name="linkUrl_2"
 196          value="http://us.expasy.org/cgi-bin/niceprot.pl?$SEQUENCE_ID$"/>
 197   <param name="hidefeaturegroups" value="uniprot" />
 198   <param name="showbutton" value="false" />
 199 </applet>
 200 <form name="exampleForm"><br/>
 201   <br/>
 202   <center><strong>Using the Jalview Applet for Input
 203       to an HTML Form</strong></center>
 204   <div align="center"><input type="button"
 205                              onClick="document.forms.exampleForm.exampleTextarea.value=document.applets.Jalview.getAlignment('fasta', 'false')"
 206                              value="Fill Form from Jalview" /> <br/>
 207     <br/>
 208     <textarea name="exampleTextarea" cols="55" rows="9"></textarea></div>
 209 </form>
 210 <center><strong>Make a new View and Get and Set
 211     Group Display List</strong></center>
 212 <form name="groupForm">
 213   <div align="center"><input type="button"
 214                              onClick="document.forms.groupForm.groups.value=document.applets.Jalview.getFeatureGroups()"
 215                              value="Get groups" /> <input type="button"
 216                                                           onClick="document.applets.Jalview.newView()" value="new View" /> <br/>
 217     <textarea name="groups" cols="55" rows="9"></textarea> <br/>
 218     <input type="button"
 219            onClick="document.applets.Jalview.setFeatureGroupState(document.forms.groupForm.groups.value, true)"
 220            value="Display groups" /> <input type="button"
 221                                             onClick="document.applets.Jalview.setFeatureGroupState(document.forms.groupForm.groups.value, false)"
 222                                             value="Hide groups" /></div>
 223 </form>
 224 </div>
 225 <!-- content template end -->
 226
 227
 228
 229 </div> <!-- end content div -->
 230
 231 </div> <!-- content -->
 232 </div> <!-- pagewrap -->
 233 <div id ="footer">
 234 <div id="innerFooter">
 235 <div id="copyright"><p>Published under <a href="http://creativecommons.org/licenses/by-sa/3.0/">CC-SA 3.0</a></p></div>
 236 <div id="cite">
 237 <p>
 238 If you use Jalview in your work, please cite this publication:
 239 </p>
 240 <br />
 241 <p>
 242 Waterhouse, A.M., Procter, J.B., Martin, D.M.A, Clamp, M. and Barton, G. J. (2009)
 243 "Jalview Version 2 - a multiple sequence alignment editor and analysis workbench"
 244 Bioinformatics 25 (9) 1189-1191 <a href="http://dx.doi.org/10.1093/bioinformatics/btp033">doi: 10.1093/bioinformatics/btp033</a>
 245 </p>
 246 </div>
 247 </div>
 248 </div>
 249 </body>
 250 </html>