public static void main(String[] args) throws Exception {
String catalog = args[0];
String file = args[1];
final ParserWrapper pw = new ParserWrapper();
pw.addIRIMapper(new CatalogXmlIRIMapper(catalog));
final OWLOntology ontology = pw.parse(file);
final OWLGraphWrapper g = new OWLGraphWrapper(ontology);
OWLObjectProperty part_of = g.getOWLObjectPropertyByIdentifier("part_of");
OWLObjectProperty has_part = g.getOWLObjectPropertyByIdentifier("has_part");
OWLObjectProperty regulates = g.getOWLObjectPropertyByIdentifier("regulates");
OWLObjectProperty negatively_regulates =
g.getOWLObjectPropertyByIdentifier("negatively_regulates");
OWLObjectProperty positively_regulates =
g.getOWLObjectPropertyByIdentifier("positively_regulates");
final OWLClassFilter filter =
new OWLClassFilter() {
@Override
public boolean use(OWLClass cls) {
String id = g.getIdentifier(cls.getIRI());
return id.startsWith("GO:");
}
};
Set<OWLObjectProperty> props = Sets.newHashSet(part_of);
Map<OWLClass, Set<OWLObjectSomeValuesFrom>> expressions =
getExpressions(ontology, props, filter);
List<OWLClass> classes = new ArrayList<OWLClass>(expressions.keySet());
Collections.sort(classes);
OWLPrettyPrinter pp = new OWLPrettyPrinter(g);
int count = 0;
for (OWLClass cls : classes) {
Set<OWLObjectSomeValuesFrom> svfs = expressions.get(cls);
for (OWLObjectSomeValuesFrom svf : svfs) {
StringBuilder sb = new StringBuilder();
sb.append(pp.render(cls)).append("\t");
sb.append(pp.render(svf.getProperty())).append("\t");
sb.append(pp.render(svf.getFiller()));
System.out.println(sb);
count += 1;
}
}
System.out.println("Count: " + count);
}
