Examples of OWLParser

org.semanticweb.owlapi.io.OWLParser
An {@code OWLParser} parses an ontology document and adds the axioms of theparsed ontology to the {@code OWLOntology} object passed to the {@code parse}methods.
{@code OWLParser} implementations are supposed to be stateless, and thereforeimmutable. By default, implementation factories are injected in OWLOntologyManager instances by a Guice injector at creation in OWLManager. This is not mandatory, and a specific manager can have different implementations injected at any time after creation.
OWLParsers are typically used by {@link OWLOntologyManager OWLOntologyManagers} to populate empty {@link OWLOntology OWLOntologies}, but can be used to add axioms to an {@code OWLOntology} that already containsaxioms.
One such case is parsing {@code owl:imports} which point to documents thatare not ontologies. In this case, any axioms parsed from the imported document are added to the existing ontology, which already contains axioms parsed from a different document. @author Matthew Horridge, The University Of Manchester, Bio-HealthInformatics Group @since 2.0.0

Examples of org.semanticweb.owlapi.io.OWLParser

    @Test
    public void testMultipleVersionLoadsNoOntologyIDFirstTime()
            throws Exception {
        OWLOntologyDocumentSource documentSource = getDocument();
        OWLOntology initialOntology = manager.createOntology();
        OWLParser parser = new RDFXMLParser();
        parser.parse(documentSource, initialOntology, config);
        assertEquals(IRI("http://test.example.org/ontology/0139"),
                initialOntology.getOntologyID().getOntologyIRI().get());
        assertEquals(v1, initialOntology.getOntologyID().getVersionIRI().get());
        OWLOntologyDocumentSource secondDocumentSource = getDocument();
        OWLOntologyID secondUniqueOWLOntologyID = new OWLOntologyID(
                Optional.of(jb), Optional.of(v2));
        OWLOntology secondOntology = manager
                .createOntology(secondUniqueOWLOntologyID);
        OWLParser secondParser = new RDFXMLParser();
        secondParser.parse(secondDocumentSource, secondOntology, config);
        assertEquals(jb, secondOntology.getOntologyID().getOntologyIRI().get());
        assertEquals(v2, secondOntology.getOntologyID().getVersionIRI().get());
    }

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Examples of org.semanticweb.owlapi.io.OWLParser

        OWLOntologyDocumentSource documentSource = getDocument();
        OWLOntologyID initialUniqueOWLOntologyID = new OWLOntologyID(
                Optional.of(jb), Optional.<IRI> absent());
        OWLOntology initialOntology = manager
                .createOntology(initialUniqueOWLOntologyID);
        OWLParser parser = new RDFXMLParser();
        parser.parse(documentSource, initialOntology, config);
        assertEquals(jb, initialOntology.getOntologyID().getOntologyIRI().get());
        // FIXME: versionIRI is null for some reason even though it was in the
        // document
        assertEquals(v1, initialOntology.getOntologyID().getVersionIRI().get());
        OWLOntologyDocumentSource secondDocumentSource = getDocument();
        OWLOntologyID secondUniqueOWLOntologyID = new OWLOntologyID(
                Optional.of(jb), Optional.of(v2));
        OWLOntology secondOntology = manager
                .createOntology(secondUniqueOWLOntologyID);
        OWLParser secondParser = new RDFXMLParser();
        // NOTE: The following call throws the OWLOntologyRenameException before
        // the patch to TypeOntologyHandler and TPVersionIRIHandler
        secondParser.parse(secondDocumentSource, secondOntology, config);
        assertEquals(jb, secondOntology.getOntologyID().getOntologyIRI().get());
        assertEquals(v2, secondOntology.getOntologyID().getVersionIRI().get());
    }

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Examples of org.semanticweb.owlapi.io.OWLParser

        OWLOntologyDocumentSource secondDocumentSource = getDocument();
        OWLOntologyID secondUniqueOWLOntologyID = new OWLOntologyID(
                Optional.of(jb), Optional.of(v2));
        OWLOntology secondOntology = manager
                .createOntology(secondUniqueOWLOntologyID);
        OWLParser secondParser = new RDFXMLParser();
        // the following throws the exception
        secondParser.parse(secondDocumentSource, secondOntology, config);
        assertEquals(jb, secondOntology.getOntologyID().getOntologyIRI().get());
        assertEquals(v2, secondOntology.getOntologyID().getVersionIRI().get());
    }

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Examples of org.semanticweb.owlapi.io.OWLParser

        OWLOntologyDocumentSource documentSource = getDocument();
        OWLOntologyID initialUniqueOWLOntologyID = new OWLOntologyID(
                Optional.of(jb), Optional.of(v1));
        OWLOntology initialOntology = manager
                .createOntology(initialUniqueOWLOntologyID);
        OWLParser parser = new RDFXMLParser();
        parser.parse(documentSource, initialOntology, config);
        assertEquals(jb, initialOntology.getOntologyID().getOntologyIRI().get());
        assertEquals(v1, initialOntology.getOntologyID().getVersionIRI().get());
    }

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Examples of org.semanticweb.owlapi.io.OWLParser

    }


    private void parseOnto(
            @Nonnull OWLOntologyDocumentSource initialDocumentSource,
            @Nonnull OWLOntology initialOntology) throws IOException {
        OWLParser initialParser = new RDFXMLParser();
        initialParser.parse(initialDocumentSource, initialOntology, config);
    }

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Examples of org.semanticweb.owlapi.io.OWLParser

        // select a parser if the input source has format information and MIME
        // information
        PriorityCollection<OWLParserFactory> parsers = getParsers(
                documentSource, manager.getOntologyParsers());
        for (OWLParserFactory parserFactory : parsers) {
            OWLParser parser = parserFactory.createParser();
            try {
                if (existingOntology == null && !ont.isEmpty()) {
                    // Junk from a previous parse. We should clear the ont
                    manager.removeOntology(ont);
                    ont = createOWLOntology(manager, ontologyID,
                            documentSource.getDocumentIRI(), handler);
                }
                OWLDocumentFormat format = parser.parse(documentSource, ont,
                        configuration);
                handler.setOntologyFormat(ont, format);
                return ont;
            } catch (IOException e) {
                // For input/output exceptions, we assume that it means the

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Examples of org.semanticweb.owlapi.io.OWLParser

    @SuppressWarnings("deprecation")
    public List<OWLParser> getParsers() {
        List<OWLParser> parsers = new ArrayList<OWLParser>();
        List<OWLParserFactory> factories = OWLParserFactoryRegistry.getInstance().getParserFactories();
        for (OWLParserFactory factory : factories) {
            OWLParser parser = factory.createParser(getOWLOntologyManager());
            parser.setOWLOntologyManager(getOWLOntologyManager());
            parsers.add(parser);
        }
        return new ArrayList<OWLParser>(parsers);
    }

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