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@@ -39,7 +39,7 @@ div.logic {
<dt>This version:</dt>
<dd>http://alignapi.gforge.inria.fr/tutorial/</dd>
<dt>Author:</dt>
-<dd><a href="http://exmo.inrialpes.fr/people/euzenat">Jérôme Euzenat</a>, INRIA Grenobe Rhône-Alpes & LIG
+<dd><a href="http://exmo.inrialpes.fr/people/euzenat">Jérôme Euzenat</a>, INRIA Grenoble Rhône-Alpes & LIG
</dd>
</dl>
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+<?xml version="1.0"?>
+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN"
+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
+<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
+<head>
+<title>Advanced tutorial on the Alignment API</title>
+<meta http-equiv="Content-Type" content="text/html; charset=ISO-8859-1" />
+<meta name="Contributor" content="Antoine Zimmermann" />
+<link rel="stylesheet" type="text/css" href="../base.css" />
+<link rel="stylesheet" type="text/css" href="../style.css" />
+<script type="text/javascript">
+<!--
+function show(id) {
+ var element = document.getElementById(id);
+ element.style.display = "block";
+}
+function hide(id) {
+ var element = document.getElementById(id);
+ element.style.display = "none";
+}
+-->
+</script>
+<style type="text/css">
+<!--
+div.logic {
+ padding-left: 5px;
+ padding-right: 5px;
+ margin-top: 10px;
+ margin-bottom: 10px;
+}
+-->
+</style>
+</head>
+<body style="background-color: #FFFFFF;">
+
+<h1>Advanced tutorial on the Alignment <abbr title="Application Programming Interface">API</abbr> and server</h1>
+
+<dl>
+<dt>This version:</dt>
+<dd>http://alignapi.gforge.inria.fr/tutorial2/</dd>
+<dt>Author:</dt>
+<dd><a href="http://exmo.inrialpes.fr/people/euzenat">Jérôme Euzenat</a>, INRIA Grenoble Rhône-Alpes & LIG
+</dd>
+</dl>
+
+<p style="border-bottom: 2px solid #AAAAAA; border-top: 2px solid
+ #AAAAAA; padding-top: 15px; padding-bottom: 15px;">Here is a
+ small tutorial for the alignment <abbr>API</abbr>. Most of the tutorial is based on command-lines invocations. Of course, it is not the natural way to use this <abbr>API</abbr>: it is made for being embedded in some application programme and we are working towards implementing an alignment server that can help programmes to use the <abbr>API</abbr> remotely.
+</p>
+<p>A small <a href="server.html">companion tutorial</a> has been designed for the Alignment
+ Server. It follows, as much as possible, the reasoning of this
+ tutorial but provides input and output through a web browser.</p>
+<small>This tutorial has been designed for the Alignment API version 3.6.</small>
+
+<h2>Preparation</h2>
+
+<p>See the <a href="../tutorial/index.html">simple tutorial preparation part</a>.</p>
+
+<h2>The data</h2>
+
+<p>
+We have two ontologies, to be found on the web, under which two half of the summerschool participants are described.
+</p>
+<p>
+The goal is to have a unified view of these participants.
+.</p>
+
+<p>The goal here is to develop a program in Java.</p>
+
+<h2>Matching ontologies</h2>
+
+<p>
+This can be achieved:
+<ul>
+<li>by running programs either locally or from the alignment server</li>
+<li>by finding an alignment from the web/server</li>
+<li>by finding a chain of alignments from the web/server</li>
+</ul>
+</p>
+
+<h2>Manipulate the data</h2>
+
+<p>
+Again, this is either:
+<ul>
+<li>generating OWL axioms from the alignments and merge the ontologies</li>
+<li>transforming data from one ontology to another</li>
+</ul>
+This can be done with the alignment API support.
+</p>
+
+<h2>Generate the answers</h2>
+
+<p>
+This can be done in two ways:
+<ul>
+<li>using SPARQL but I think that I already</li>
+<li>using Pellet or something to answer these queries.</li>
+</ul>
+Indeed, I will go for the second one (too bad because the first one is nice).
+</p>
+
+<p>Of course, you can do it progressively.</p>
+<div class="fragment">
+$ javac -classpath ../../lib/api.jar:../../lib/rdfparser.jar:../../lib/align.jar:../../lib/procalign.jar -d results MyApp.java
+$ java -cp ../../lib/Procalign.jar:results MyApp file://$CWD/myOnto.owl file://$CWD/edu.mit.visus.bibtex.owl > results/MyApp.owl
+</div>
+
+<p>Do you want to see a possible solution?</p>
+<div class="button">
+ <input type="button" onclick="show('qu7')" value="Cheat"/>
+ <input type="button" onclick="hide('qu7')" value="Teacher is comming"/>
+</div>
+<div class="explain" id="qu7"><p>The main piece of code in Skeleton.java is replaced by:</p>
+<pre>
+// Run two different alignment methods (e.g., ngram distance and smoa)
+AlignmentProcess a1 = new StringDistAlignment();
+a1.init( onto1, onto2 );
+params.setParameter("stringFunction","smoaDistance");
+a1.align( (Alignment)null, params );
+AlignmentProcess a2 = new StringDistAlignment();
+a2.init( onto1, onto2 );
+params = new BasicParameters();
+params.setParameter("stringFunction","ngramDistance");
+a2.align( (Alignment)null, params );
+
+// Merge the two results.
+((BasicAlignment)a1).ingest(a2);
+
+// Threshold at various thresholds
+// Evaluate them against the references
+// and choose the one with the best F-Measure
+AlignmentParser aparser = new AlignmentParser(0);
+Alignment reference = aparser.parse( "file://"+(new File ( "refalign.rdf" ) . getAbsolutePath()) );
+Evaluator evaluator = new PRecEvaluator( reference, a1 );
+
+double best = 0.;
+Alignment result = null;
+for ( int i = 0; i <= 10 ; i = i+2 ){
+ a1.cut( ((double)i)/10 );
+ evaluator.eval( new BasicParameters() );
+ System.err.println("Threshold "+(((double)i)/10)+" : "+((PRecEvaluator)evaluator).getFmeasure());
+ if ( ((PRecEvaluator)evaluator).getFmeasure() > best ) {
+ result = (BasicAlignment)((BasicAlignment)a1).clone();
+ best = ((PRecEvaluator)evaluator).getFmeasure();
+ }
+}
+
+// Displays it as SWRL Rules
+PrintWriter writer = new PrintWriter (
+ new BufferedWriter(
+ new OutputStreamWriter( System.out, "UTF-8" )), true);
+AlignmentVisitor renderer = new SWRLRendererVisitor(writer);
+result.render(renderer);
+writer.flush();
+writer.close();
+</pre></div>
+
+<p>A full working solution is <a href="MyApp.java">MyApp.java</a>.</p>
+
+<div class="logic"><p><b>More work:</b> We will think about that.</p></div>
+
+<h2>Further exercises</h2>
+
+<p>More info: <a href="http://alignapi.gforge.inria.fr">http://alignapi.gforge.inria.fr</a></p>
+
+
+<h2>Acknowledgements</h2>
+
+<p>The format of this tutorial has been shamelessly borrowed from Sean Bechhofer's <a href="http://owl.man.ac.uk/2005/07/sssw/"><acronym>OWL</acronym> tutorial</a>.</p>
+
+<hr />
+<small>
+<p style="text-align: center;">http://alignapi.gforge.inria.fr/tutorial2/</p>
+</small>
+<hr />
+<p>$Id: index.html 742 2008-07-07 23:20:07Z euzenat $</p>
+</body>
+</html>