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<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
* The Jalview Authors are detailed in the 'AUTHORS' file.
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-<head>
- <TITLE>Linked JalviewLites</TITLE>
- <meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
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-<![endif]-->
+<div id="view_decorated" name="view_decorated" style="margin:8px; padding:10px; border: 2px solid red; text-align:center; display:none;"><b>Click <a href="index.html#linkedapplets_ng"> here</a> to view decorated page</b></div>
-<!-- dd menu -->
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-//--><!]]>
- </script>
-
-</head>
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-
-<body>
-
-
-<div id="header">
-<div id="logo"><a href="http://www.jalview.org" title="Home"></a></div>
-<ul id="buttons">
-<li id="applet"><a href="applets.html" title="applet"></a></li>
-<li id="desktop"><a href="../webstart/jalview.jnlp" title="desktop"></a></li>
-</ul>
-</div>
-
-
-<div id ="nav">
-<div id="navInner">
+<!-- boiler plate link to alternate demopage -->
+<div style="width: 100%">
+<div style="width:35%; align:left; float:right;">
-<ul id="sddm">
- <li><a href="http://www.jalview.org">Home</a></li>
- <li><a href="http://www.jalview.org/about" onmouseover="mopen('m1')" onmouseout="mclosetime()">About</a>
- <div id="m1" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
- <a href="http://www.jalview.org/about/documentation">Documentation</a>
- <a href="http://www.jalview.org/about/citation">Publications</a>
- <a href="http://www.jalview.org/about/credits">Credits</a>
- </div>
- </li>
- <li><a href="http://www.jalview.org/faq">FAQ</a></li>
- <li><a href="http://www.jalview.org/community" onmouseover="mopen('m3')" onmouseout="mclosetime()" class="community">Community</a>
- <div id="m3" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
- <a href="http://www.jalview.org/mailman/listinfo/jalview-announce">News Mailing List</a>
- <a href="http://www.jalview.org/mailman/listinfo/jalview-discuss">Discussion Mailing List</a>
- <a href="http://www.jalview.org/community/links">Links</a>
- <a href="http://www.jalview.org/community/community-news">Community News</a>
- </div>
- </li>
- <li><a href="http://www.jalview.org/development" onmouseover="mopen('m4')" onmouseout="mclosetime()" class="development">Development</a>
- <div id="m4" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
- <a href="http://www.jalview.org/development/release-history">Release History</a>
- <a href="http://issues.jalview.org">Jalview Bug Tracker</a>
- <a href="http://source.jalview.org/gitweb/">Jalview Git Web</a>
- <a href="http://www.jalview.org/development/development-news">Development News</a>
- </div>
- </li>
- <li><a href="http://www.jalview.org/training" onmouseover="mopen('m5')" onmouseout="mclosetime()" class="training">Training</a>
- <div id="m5" onmouseover="mcancelclosetime()" onmouseout="mclosetime()">
- <a href="http://www.jalview.org/training/training-courses">Training Courses</a>
- <a href="http://www.jalview.org/training/training-news">Training News</a>
- </div>
- </li>
- <li><a href="http://www.jalview.org/download" class="download-right">Download</a></li>
-</ul>
-<div style="clear:both"></div>
</div>
-
</div>
-<div id="pageWrap">
-<div id="sideNav">
-<ul>
-<li><a href="applets.html">JalviewLite Examples</a></li>
- <li ><a href="jalviewLiteJs.html">Javascript API</a></li>
-<li><a href="appletParameters.html">Applet Parameters</a></li>
- <li ><a href="embedded.html">Embedded Alignment</a></li>
- <li ><a href="embeddedWJmol.html">Jalview and Jmol</a></li>
- <li ><a href="formComplete.html">Access from Javascript</a></li>
- <li ><a href="javascriptLaunch.html">Javascript Launch</a></li>
- <li class="jvlite-nav-small"><a href="linkedapplets_ng.html">Linked JalviewLites</a></li>
-</ul>
-</div>
-<div id="content" class="content">
-
-
-<!-- boiler plate link to alternate demopage -->
-
-<div style="width: 100%">
-<div style="width:35%; align:left; float:right;">
-<div style="margin:8px; padding:8px; border: 2px solid black; align: center; float:center;">
- Examples aren't working ?<br/>Try <a href="u_linkedapplets_ng.html">the unsigned applet demos</a>
-</div>
-<div style="margin:8px; padding:10px; align: left;">
-<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>
-</p></div>
-</div>
-</div>
<!-- content template start -->
-<script src="http://www.java.com/js/deployJava.js"></script>
-<script src="javascript/jalview.js" language="javascript"></script>
-<script> //deployJava.debug="true";
-
- function lJvApp() {
- var jvapp = document.getElementById("jvapp");
- var jvfollower = document.getElementById("jvfollower");
- setConsole(document.getElementById("stdout"));
- //jvapp.setSeparator(""+jvapp.getSeparator());
- linkJvJmol(jvapp);
- };
- function lJvFollow() {
- var jvapp = document.getElementById("jvapp");
- var jvfollower = document.getElementById("jvfollower");
- //jvfollower.setSeparator(""+jvfollower.getSeparator());
- linkJvJmol(jvfollower);
- };
-</script>
<h2>JalviewLite Linked Applets Demo</h2>
- <p>The two applets below use <a href="jalviewLiteJs.html">JalviewLite's javascript API</a> to exchange events about the currently selected region and mouse position in the alignment.
- </p>
- <script>
- var attributes = {
- code : 'jalview.bin.JalviewLite',
- archive : 'jalviewApplet.jar',
- width : 800,
- height : 300,
- mayscript : 'True', scriptable: 'True',
- id : 'jvapp'
- };
- var parameters = {
- oninit : "lJvApp",
- automaticScrolling : "true",
- file : "plantfdx.fa",
- annotations : "plantfdx.annotations",
- debug : "true",
- wrap : "false",
- // separator : "^",
- showAnnotation : "true",
- embedded : "true",
- showFullId : "false",
- RGB : "F2F2FF",
- linkLabel_1 : "EMBL-EBI Search",
- linkUrl_1 : "http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"
- ,
- linkLabel_2 : "Uniprot"
- ,
- linkUrl_2 : "http://www.uniprot.org/uniprot/$SEQUENCE_ID$",
- permissions : 'sandbox',
- APPLICATION_URL : "http://www.jalview.org/services/launchApp"
- };
-
- deployJava.runApplet(attributes, parameters, '1.6');
-</script>
-<script>
- var attributes = {
- code : 'jalview.bin.JalviewLite',
- archive : 'jalviewApplet.jar',
- width : 800,
- height : 300,
- mayscript : 'True', scriptable: 'True',
- id : "jvfollower"
- };
- var parameters = {
- oninit : "lJvFollow",
- file : "plantfdx.fa",
- annotations : "plantfdx.annotations",
- automaticScrolling : "true",
- debug : "true",
- wrap : "false",
- // separator : "^",
- showAnnotation : "true",
- embedded : "true",
- showFullId : "false",
- RGB : "F2F2FF",
- linkLabel_1 : "EMBL-EBI Search",
- linkUrl_1 : "http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"
- ,
- linkLabel_2 : "Uniprot",
- linkUrl_2 : "http://www.uniprot.org/uniprot/$SEQUENCE_ID$",
- permissions : 'sandbox',
- APPLICATION_URL : "http://www.jalview.org/services/launchApp"
- };
- deployJava.runApplet(attributes, parameters, '1.6');
-</script>
+ <p>The two applets below use <a href="javascript:doSubmit('jalviewLiteJs')">JalviewLite's javascript API</a> to exchange events about the currently selected region and mouse position in the alignment.
+ <a href="view-source:http://www.jalview.org/builds/develop/examples/linkedapplets_ng.html" target="_blank">View the source here to see how it has been done</a> (If the link doesn't work on your browser try going to <a href="http://www.jalview.org/builds/develop/examples/linkedapplets_ng.html">this page</a> and viewing the page source manually).</p>
+
+
+<applet
+ code="jalview.bin.JalviewLite" width="800" height="300" id="jvapp" mayscript="True" scriptable="True" archive="jalviewApplet.jar,JmolApplet-14.6.4_2016.10.26.jar,java-json.jar,json_simple-1.1.jar">
+<param name="oninit" value="lJvApp"/>
+<param name="automaticScrolling" value="true"/>
+<param name="file" value="plantfdx.fa"/>
+<param name="annotations" value="plantfdx.annotations"/>
+<param name="debug" value="true"/>
+<param name="wrap" value="false"/>
+<param name="showAnnotation" value="true"/>
+<param name="embedded" value="true"/>
+<param name="showFullId" value="false"/>
+<param name="RGB" value="F2F2FF"/>
+<param name="linkLabel_1" value="EMBL-EBI Search"/>
+<param name="linkUrl_1" value="http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"/>
+<param name="linkLabel_2" value="Uniprot"/>
+<param name="linkUrl_2" value="http://www.uniprot.org/uniprot/$SEQUENCE_ID$"/>
+<param name="permissions" value="sandbox"/>
+<param name="APPLICATION_URL" value="http://www.jalview.org/services/launchApp"/>
+</applet>
+
+
+
+
+<applet
+ code="jalview.bin.JalviewLite" width="800" height="300" id="jvfollower" mayscript="True" scriptable="True" archive="jalviewApplet.jar,JmolApplet-14.6.4_2016.10.26.jar,java-json.jar,json_simple-1.1.jar">
+<param name="oninit" value="lJvFollow"/>
+<param name="file" value="plantfdx.fa"/>
+<param name="annotations" value="plantfdx.annotations"/>
+<param name="automaticScrolling" value="true"/>
+<param name="debug" value="true"/>
+<param name="wrap" value="false"/>
+<param name="showAnnotation" value="true"/>
+<param name="embedded" value="true"/>
+<param name="showFullId" value="false"/>
+<param name="RGB" value="F2F2FF"/>
+<param name="linkLabel_1" value="EMBL-EBI Search"/>
+<param name="linkUrl_1" value="http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"/>
+<param name="linkLabel_2" value="Uniprot"/>
+<param name="linkUrl_2" value="http://www.uniprot.org/uniprot/$SEQUENCE_ID$"/>
+<param name="permissions" value="sandbox"/>
+<param name="APPLICATION_URL" value="http://www.jalview.org/services/launchApp"/>
+</applet>
+
+
<p>
<!-- <a href="javascript:linkJvJmol()">Click Me If you don't see any messages below</a>
<br>
id="stdout" rows="20" cols="80">Messages will appear here.</textarea></form>
<br>
</p>
-<!-- content template end -->
-
-
-
-</div> <!-- end content div -->
-
-</div> <!-- content -->
-</div> <!-- pagewrap -->
-<div id ="footer">
-<div id="innerFooter">
-<div id="copyright"><p>Published under <a href="http://creativecommons.org/licenses/by-sa/3.0/">CC-SA 3.0</a></p></div>
-<div id="cite">
-<p>
-If you use Jalview in your work, please cite this publication:
-</p>
-<br />
-<p>
-Waterhouse, A.M., Procter, J.B., Martin, D.M.A, Clamp, M. and Barton, G. J. (2009)
-"Jalview Version 2 - a multiple sequence alignment editor and analysis workbench"
-Bioinformatics 25 (9) 1189-1191 <a href="http://dx.doi.org/10.1093/bioinformatics/btp033">doi: 10.1093/bioinformatics/btp033</a>
-</p>
-</div>
-</div>
-</div>
-</body>
-</html>
+<!-- content template end -->
\ No newline at end of file
git://source.jalview.org / jalview.git / blobdiff