Examples with RDFParseException org.openrdf.rio.RDFParseException used on opensource projects

Example 11 with RDFParseException

use of org.openrdf.rio.RDFParseException in project incubator-rya by apache.

the class RyaSailRepositoryConnection method add.

@Override
public void add(Reader reader, String baseURI, RDFFormat dataFormat, Resource... contexts) throws IOException, RDFParseException, RepositoryException {
    OpenRDFUtil.verifyContextNotNull(contexts);
    CombineContextsRdfInserter rdfInserter = new CombineContextsRdfInserter(this);
    rdfInserter.enforceContext(contexts);
    boolean localTransaction = startLocalTransaction();
    try {
        RDFLoader loader = new RDFLoader(getParserConfig(), getValueFactory());
        loader.load(reader, baseURI, dataFormat, rdfInserter);
        conditionalCommit(localTransaction);
    } catch (RDFHandlerException e) {
        conditionalRollback(localTransaction);
        throw ((RepositoryException) e.getCause());
    } catch (RDFParseException e) {
        conditionalRollback(localTransaction);
        throw e;
    } catch (IOException e) {
        conditionalRollback(localTransaction);
        throw e;
    } catch (RuntimeException e) {
        conditionalRollback(localTransaction);
        throw e;
    }
}

Example 12 with RDFParseException

use of org.openrdf.rio.RDFParseException in project incubator-rya by apache.

the class AccumuloLoadStatementsFile method loadStatements.

@Override
public void loadStatements(final String ryaInstanceName, final Path statementsFile, final RDFFormat format) throws InstanceDoesNotExistException, RyaClientException {
    requireNonNull(ryaInstanceName);
    requireNonNull(statementsFile);
    requireNonNull(format);
    // Ensure the Rya Instance exists.
    if (!instanceExists.exists(ryaInstanceName)) {
        throw new InstanceDoesNotExistException(String.format("There is no Rya instance named '%s'.", ryaInstanceName));
    }
    Sail sail = null;
    SailRepository sailRepo = null;
    SailRepositoryConnection sailRepoConn = null;
    try {
        // Get a Sail object that is connected to the Rya instance.
        final AccumuloRdfConfiguration ryaConf = getAccumuloConnectionDetails().buildAccumuloRdfConfiguration(ryaInstanceName);
        // RYA-327 should address this hardcoded value.
        ryaConf.setFlush(false);
        sail = RyaSailFactory.getInstance(ryaConf);
        // Load the file.
        sailRepo = new SailRepository(sail);
        sailRepoConn = sailRepo.getConnection();
        sailRepoConn.add(statementsFile.toFile(), null, format);
    } catch (final SailException | AccumuloException | AccumuloSecurityException | RyaDAOException | InferenceEngineException e) {
        log.warn("Exception while loading:", e);
        throw new RyaClientException("A problem connecting to the Rya instance named '" + ryaInstanceName + "' has caused the load to fail.", e);
    } catch (final RepositoryException | RDFParseException | UnsupportedRDFormatException | IOException e) {
        log.warn("Exception while loading:", e);
        throw new RyaClientException("A problem processing the RDF file has caused the load into Rya instance named " + ryaInstanceName + "to fail.", e);
    } finally {
        // Shut it all down.
        if (sailRepoConn != null) {
            try {
                sailRepoConn.close();
            } catch (final RepositoryException e) {
                log.warn("Couldn't close the SailRepoConnection that is attached to the Rya instance.", e);
            }
        }
        if (sailRepo != null) {
            try {
                sailRepo.shutDown();
            } catch (final RepositoryException e) {
                log.warn("Couldn't shut down the SailRepository that is attached to the Rya instance.", e);
            }
        }
        if (sail != null) {
            try {
                sail.shutDown();
            } catch (final SailException e) {
                log.warn("Couldn't shut down the Sail that is attached to the Rya instance.", e);
            }
        }
    }
}

Example 13 with RDFParseException

use of org.openrdf.rio.RDFParseException in project wikidata-query-rdf by wikimedia.

the class Munge method run.

public void run() throws RDFHandlerException, IOException, RDFParseException, InterruptedException {
    try {
        AsyncRDFHandler chunkWriter = AsyncRDFHandler.processAsync(new RDFChunkWriter(chunkFileFormat), false, BUFFER_SIZE);
        AtomicLong actualChunk = new AtomicLong(0);
        EntityMungingRdfHandler.EntityCountListener chunker = (entities) -> {
            long currentChunk = entities / chunkSize;
            if (currentChunk != actualChunk.get()) {
                actualChunk.set(currentChunk);
                // endRDF will cause RDFChunkWriter to start writing a new chunk
                chunkWriter.endRDF();
            }
        };
        EntityMungingRdfHandler munger = new EntityMungingRdfHandler(uris, this.munger, chunkWriter, chunker);
        RDFParser parser = RDFParserSuppliers.defaultRdfParser().get(AsyncRDFHandler.processAsync(new NormalizingRdfHandler(munger), true, BUFFER_SIZE));
        parser.parse(from, uris.root());
        // thread:main: parser -> AsyncRDFHandler -> queue
        // thread:replayer1: Normalizing/Munging -> AsyncRDFHandler -> queue
        // thread:replayer2: RDFChunkWriter -> RDFWriter -> IO
        chunkWriter.waitForCompletion();
    } finally {
        try {
            from.close();
        } catch (IOException e) {
            log.error("Error closing input", e);
        }
    }
}

Example 14 with RDFParseException

use of org.openrdf.rio.RDFParseException in project vcell by virtualcell.

the class PCIDRequest method response.

@Override
public PathwayCommonsResponse response() {
    try {
        URL url = url();
        URLConnection connection = url.openConnection();
        String text = StringUtil.textFromInputStream(connection.getInputStream());
        Graph graph = new HashGraph();
        Map<String, String> nsMap = new HashMap<String, String>();
        SesameRioUtil.readRDFFromString(text, graph, nsMap, RDFFormat.RDFXML, uriBase);
        try {
            return new PCTextModelResponse(this, text, graph);
        } catch (Throwable t) {
            return new PCTextResponse(this, text);
        }
    } catch (MalformedURLException e) {
        return new PCExceptionResponse(this, e);
    } catch (IOException e) {
        return new PCExceptionResponse(this, e);
    } catch (RDFParseException e) {
        return new PCExceptionResponse(this, e);
    } catch (RDFHandlerException e) {
        return new PCExceptionResponse(this, e);
    }
}