examples/embedded.html

   1 <!DOCTYPE html SYSTEM "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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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.
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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.
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  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 <html xmlns="http://www.w3.org/1999/xhtml">
  20 <title>
  21 Embedded viewing of Alignments
  22 </title>
  23 <body>
  24 <h1>Embedded viewing of Alignments</h1>
  25 <p>The alignment below was generated from the following files:
  26 <ul>
  27         <li><a href="plantfdx.fa">plantfdx.fa</a> - Alignment file in
  28         FASTA format</li>
  29         <li><a href="plantfdx.features">plantfdx.features</a> - Jalview
  30         Format Sequence Features file</li>
  31         <li><a href="plantfdx.annotations">plantfdx.annotations</a> -
  32         Jalview Alignment Annotations File</li>
  33 </ul>
  34 <applet code="jalview.bin.JalviewLite"
  35                         width="756" height="560" archive="jalviewApplet.jar">
  36                         <param name="file" value="plantfdx.fa">
  37                         <param name="annotations" value="plantfdx.annotations">
  38                         <param name="features" value="plantfdx.features">
  39                         <param name="embedded" value="true">
  40                         <param name="userDefinedColour"
  41                                 value="C=yellow; R,K,H=FF5555; D,E=5555FF">
  42                         <param name="showFullId" value="false">
  43                         <param name="RGB" value="F2F2FF">
  44                         <param name="linkLabel_1" value="SRS">
  45                         <param name="linkUrl_1"
  46                                 value="http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[uniprot-all:$SEQUENCE_ID$]+-vn+2">
  47                         <param name="linkLabel_2" value="Uniprot">
  48                         <param name="linkUrl_2"
  49                                 value="http://us.expasy.org/cgi-bin/niceprot.pl?$SEQUENCE_ID$">
  50                         <param name="APPLICATION_URL"
  51                                 value="http://www.jalview.org/services/launchApp">
  52                 </applet>
  53 </p>
  54 </body>
  55 </html>