2 * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3 * Copyright (C) $$Year-Rel$$ The Jalview Authors
5 * This file is part of Jalview.
7 * Jalview is free software: you can redistribute it and/or
8 * modify it under the terms of the GNU General Public License
9 * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
11 * Jalview is distributed in the hope that it will be useful, but
12 * WITHOUT ANY WARRANTY; without even the implied warranty
13 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
14 * PURPOSE. See the GNU General Public License for more details.
16 * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
17 * The Jalview Authors are detailed in the 'AUTHORS' file.
21 <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#embedded"> here</a> to view decorated page</b></div>
23 <!-- boiler plate link to alternate demopage -->
24 <div style="width: 100%">
25 <div style="width:35%; align:left; float:right;">
29 <!-- content template start -->
30 <h2>Embedded viewing of Alignments</h2>
31 <p>The alignment below was generated from the following files:
33 <li><a href="plantfdx.fa">plantfdx.fa</a> - Alignment file in
35 <li><a href="plantfdx.features">plantfdx.features</a> - Jalview
36 Format Sequence Features file</li>
37 <li><a href="plantfdx.annotations">plantfdx.annotations</a> -
38 Jalview Alignment Annotations File</li>
40 <a href="view-source:http://www.jalview.org/builds/develop/examples/embedded.html" target="_blank">View the source code for this example here</a> (If the link doesn't work on your browser try going to <a href="http://www.jalview.org/builds/develop/examples/embedded.html">this page</a> and viewing the page source manually).<p>
42 code="jalview.bin.JalviewLite" width="756" height="560"
43 archive="jalviewApplet.jar,JmolApplet-14.2.14_2015.06.11.jar,java-json.jar,json_simple-1.1.jar">
44 <param name="permissions" value="sandbox"/>
45 <param name="file" value="plantfdx.fa"/>
46 <param name="features" value="plantfdx.features"/>
47 <param name="userDefinedColour" value="C=yellow; R,K,H=FF5555; D,E=5555FF"/>
48 <param name="showFullId" value="false"/>
49 <param name="embedded" value="true"/>
50 <param name="linkLabel_1" value="Uniprot"/>
51 <param name="linkUrl_1"
52 value="http://www.uniprot.org/uniprot/$SEQUENCE_ID$"/>
53 <param name="linkLabel_2" value="EMBL-EBI Search"/>
54 <param name="linkUrl_2"
55 value="http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"/>
56 <param name="APPLICATION_URL"
57 value="http://www.jalview.org/services/launchApp"/>
60 <!-- content template end -->