Mentions légales du service

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Commit ccbbd14a authored by Jérôme Euzenat's avatar Jérôme Euzenat
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- further improved the tutorial

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html/tutorial/MyApp.java
+ 12
− 5
View file @ ccbbd14a
......@@ -87,7 +87,7 @@ public class MyApp {
return ;
}
// Run two diffent alignment methods (e.g., ngram distance and smoa)
// Run two different alignment methods (e.g., ngram distance and smoa)
AlignmentProcess a1 = new StringDistAlignment( onto1, onto2 );
params.setParameter("stringFunction","smoaDistance");
a1.align( (Alignment)null, params );
......@@ -99,24 +99,31 @@ public class MyApp {
// Merge the two results.
((BasicAlignment)a1).ingest(a2);
// Test its f-measure.
// 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://localhost"+(new File ( "refalign.rdf" ) . getAbsolutePath()), loaded );
Evaluator evaluator = new PRecEvaluator( reference, a1 );
// Threshold at various thresholds (and maybe various threshold methods)
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();
}
}
// If it is over a certain value, output the result as SWRL rules.
// Displays it as SWRL Rules
PrintWriter writer = new PrintWriter (
new BufferedWriter(
new OutputStreamWriter( System.out, "UTF-8" )), true);
AlignmentVisitor renderer = new SWRLRendererVisitor(writer);
a1.render(renderer);
result.render(renderer);
writer.flush();
writer.close();
......
html/tutorial/index.html
+ 30
− 29
View file @ ccbbd14a
......@@ -352,7 +352,7 @@ which brings for the same assertions:
through XLST transformations which will transform the OWL instance
files from one ontology to another:
<div class="fragment"><pre>
$ java -cp ../../lib/procalign.jar fr.inrialpes.exmo.align.util.ParserPrinter dist.rdf -r fr.inrialpes.exmo.align.impl.renderer.XSLTRendererVisitor -o results/SMOA5.xsl
$ java -cp ../../lib/procalign.jar fr.inrialpes.exmo.align.util.ParserPrinter results/SMOA5.rdf -r fr.inrialpes.exmo.align.impl.renderer.XSLTRendererVisitor -o results/SMOA5.xsl
</pre></div>
this transformation can be applied to the data of <a href="data.xml">data.xml</a>:
<div class="fragment"><pre>
......@@ -528,38 +528,37 @@ $ java -jar ../../lib/Procalign.jar file://localhost$CWD/rdf/edu.umbc.ebiquity.p
<h2>Embedding</h2>
<p>Of course, the goal of this API is not to be used at the command
line level (even if it is very often very useful). So if you are
ready for it, you can develop in Java your own application that take
line level (even if it can be very useful). So if you are
ready for it, you can develop in Java your own application that takes
advantage of the API.</p>
<p>A skeleton of program using the Alignment API
is <a href="Skeleton.java">Skeleton.java</a>. It can be compiled by
invoking:
<div class="fragment"><pre>
$ javac -classpath ../../lib/api.jar:../../lib/rdfparser.jar:../../lib/align.jar:../../lib/procalign.jar Skeleton.java
$ javac -classpath ../../lib/api.jar:../../lib/rdfparser.jar:../../lib/align.jar:../../lib/procalign.jar -d results Skeleton.java
</div>
and run by:
<div class="fragment"><pre>
$ java -cp ../../lib/Procalign.jar:. Skeleton myOnto.owl edu.mit.visus.bibtex.owl
$ java -cp ../../lib/Procalign.jar:results Skeleton myOnto.owl edu.mit.visus.bibtex.owl
</pre></div></p>
<p>Now considering the API (that can be consulted through its thin
at <a
href="../../javadoc/org/semanticweb/owl/align/Alignment.html">Javadoc</a>
<a href="../../javadoc/org/semanticweb/owl/align/Alignment.html">Javadoc</a>
for instance), can you modify the Skeleton program in order for it
performs the following:
<ul compact="1">
<li>Run two diffent alignment methods (e.g., ngram distance and
<li>Run two different alignment methods (e.g., ngram distance and
smoa);</li>
<li>Merge the two results;</li>
<li>Threshold at various thresholds;</li>
<li>Evaluate them against the references and choose the one with the
<li>Trim at various thresholds;</li>
<li>Evaluate them against the reference alignment and choose the one with the
best F-Measure;</li>
<li>Displays it as SWRL Rules.</li>
</ul>
Of course, you can do it progressively.
<div class="fragment"><pre>
$ javac -classpath ../../lib/api.jar:../../lib/rdfparser.jar:../../lib/align.jar:../../lib/procalign.jar MyApp.java
$ java -cp ../../lib/Procalign.jar:. MyApp myOnto.owl edu.mit.visus.bibtex.owl > results/MyApp.owl
$ 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 myOnto.owl edu.mit.visus.bibtex.owl > results/MyApp.owl
</pre></div></p>
<p>Do you want to see a possible solution?
<div class="button"><form>
......@@ -569,7 +568,7 @@ $ java -cp ../../lib/Procalign.jar:. MyApp myOnto.owl edu.mit.visus.bibtex.owl >
<div class="explain" id="qu7"><p>
The main piece of code in Skeleton.java is replaced by
<pre>
// Run two diffent alignment methods (e.g., ngram distance and smoa)
// Run two different alignment methods (e.g., ngram distance and smoa)
AlignmentProcess a1 = new StringDistAlignment( onto1, onto2 );
params.setParameter("stringFunction","smoaDistance");
a1.align( (Alignment)null, params );
......@@ -581,24 +580,33 @@ a1.align( (Alignment)null, params );
// Merge the two results.
((BasicAlignment)a1).ingest(a2);
// Test its f-measure.
// 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://localhost"+(new File ( "refalign.rdf" ) . getAbsolutePath()), loaded );
Evaluator evaluator = new PRecEvaluator( reference, a1 );
// Threshold at various thresholds (and maybe various threshold methods)
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();
}
}
// If it is over a certain value, output the result as SWRL rules.
// Displays it as SWRL Rules
PrintWriter writer = new PrintWriter (
new BufferedWriter(
new OutputStreamWriter( System.out, "UTF-8" )), true);
new BufferedWriter(
new OutputStreamWriter( System.out, "UTF-8" )), true);
AlignmentVisitor renderer = new SWRLRendererVisitor(writer);
a1.render(renderer);
result.render(renderer);
writer.flush();
writer.close();
</pre>
</p></div></p>
</p>
......@@ -608,22 +616,15 @@ a1.render(renderer);
be passed at commant-line.
</p></div></p>
<p><div class="logic"><p><b>More work:</b> Implement the F-measure optimization rule
presented above so that you automatically select the threshold that
maximizes F-measure.
</p></div></p>
<p><div class="logic"><p><b>Advanced:</b>
What about writing an editor for the alignment API?
</p></div></p>
<p><div class="logic"><p><b>Advanced:</b>
You can develop a specialized matching algorithm
by subclassing the Java programs provided in the Alignment API
implementation (like BasicAlignment or DistanceAlignment).
</p></div></p>
<p><div class="logic"><p><b>Advanced:</b>
What about writing an editor for the alignment API?
</p></div></p>
<hr />
<h2>Further exercises</h2>
......
html/tutorial/script.sh
+ 5
− 4
View file @ ccbbd14a
......@@ -54,8 +54,9 @@ cp refalign.rdf results
java -cp ../../lib/procalign.jar fr.inrialpes.exmo.align.util.GroupEval -r refalign.rdf -l "refalign,equal,SMOA,SMOA5,levenshtein,levenshtein33" -c prf -o results/eval.html
#####################
# Evaluating
javac -classpath ../../lib/api.jar:../../lib/rdfparser.jar:../../lib/align.jar:../../lib/procalign.jar MyApp
java -cp ../../lib/Procalign.jar MyApp file://localhost$CWD/rdf/myOnto.owl file://localhost$CWD/rdf/edu.mit.visus.bibtex.owl
# Embedding
javac -classpath ../../lib/api.jar:../../lib/rdfparser.jar:../../lib/align.jar:../../lib/procalign.jar -d results Skeleton.java
java -cp ../../lib/Procalign.jar:results Skeleton myOnto.owl edu.mit.visus.bibtex.owl
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 myOnto.owl edu.mit.visus.bibtex.owl > results/MyApp.owl
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