Examples with ENanoMapperRDFReader net.idea.loom.nm.nanowiki.ENanoMapperRDFReader used on opensource projects

Example 1 with ENanoMapperRDFReader

use of net.idea.loom.nm.nanowiki.ENanoMapperRDFReader in project ambit-mirror by ideaconsult.

the class ENanoMapperRDF2Test method testRoundtrip.

@Test
public void testRoundtrip() throws Exception {
    ENanoMapperRDFReader reader = null;
    Request hack = new Request();
    hack.setRootRef(new Reference("http://localhost/ambit2"));
    SubstanceRDFReporter r = new SubstanceRDFReporter(hack, MediaType.TEXT_RDF_N3);
    Model model = ModelFactory.createDefaultModel();
    r.header(model, null);
    r.setOutput(model);
    try {
        reader = new ENanoMapperRDFReader(new InputStreamReader(new FileInputStream(getRDFFile())), "DEMO");
        while (reader.hasNext()) {
            IStructureRecord record = reader.nextRecord();
            Assert.assertTrue(record instanceof SubstanceRecord);
            r.processItem((SubstanceRecord) record);
        }
        r.footer(model, null);
        File output = new File(System.getProperty("java.io.tmpdir") + "/" + "enmrdf_export2.ttl");
        System.out.println("Exported to " + output.getAbsolutePath());
        OutputStream writer = new FileOutputStream(output);
        RDFDataMgr.write(writer, model, RDFFormat.TURTLE);
    } finally {
        if (reader != null)
            reader.close();
    }
}

Example 2 with ENanoMapperRDFReader

use of net.idea.loom.nm.nanowiki.ENanoMapperRDFReader in project ambit-mirror by ideaconsult.

the class Context method createParser.

protected IRawReader<IStructureRecord> createParser(InputStream stream, boolean xlsx) throws Exception {
    _parsertype mode = getParserType();
    InputStream in = null;
    if (gzipped)
        in = new GZIPInputStream(stream);
    else
        in = stream;
    if (mode == null) {
        logger_cli.log(Level.INFO, "MSG_IMPORT", new Object[] { "parser type not specified, assuming", xlsx ? "xlsx" : "xls" });
        return new GenericExcelParser(in, jsonConfig, xlsx);
    } else
        switch(mode) {
            case enmrdf:
                return new ENanoMapperRDFReader(new InputStreamReader(in), "ENM3");
            case nanowiki:
                return new NanoWikiRDFReader(new InputStreamReader(in));
            default:
                if (jsonConfig == null)
                    throw new FileNotFoundException("JSON config file not specified!");
                return new GenericExcelParser(in, jsonConfig, xlsx, prefix);
        }
}

Example 3 with ENanoMapperRDFReader

use of net.idea.loom.nm.nanowiki.ENanoMapperRDFReader in project ambit-mirror by ideaconsult.

the class ENanoMapperRDF2Test method testRead.

@Test
public void testRead() throws Exception {
    ENanoMapperRDFReader reader = null;
    try {
        reader = new ENanoMapperRDFReader(new InputStreamReader(new FileInputStream(getRDFFile())), "DEMO");
        while (reader.hasNext()) {
            IStructureRecord record = reader.nextRecord();
            Assert.assertTrue(record instanceof SubstanceRecord);
            System.out.println("Substance: " + ((SubstanceRecord) record).toJSON(""));
        }
    } finally {
        if (reader != null)
            reader.close();
    }
}

Example 4 with ENanoMapperRDFReader

use of net.idea.loom.nm.nanowiki.ENanoMapperRDFReader in project ambit-mirror by ideaconsult.

the class ENanoMapperRDFTest method testRead.

@Test
public void testRead() throws Exception {
    ENanoMapperRDFReader reader = null;
    try {
        reader = new ENanoMapperRDFReader(new InputStreamReader(new FileInputStream(getRDFFile())), "DEMO");
        while (reader.hasNext()) {
            IStructureRecord record = reader.nextRecord();
            Assert.assertTrue(record instanceof SubstanceRecord);
            System.out.println("Substance: " + ((SubstanceRecord) record).toJSON(""));
        }
    } finally {
        if (reader != null)
            reader.close();
    }
}

Example 5 with ENanoMapperRDFReader

use of net.idea.loom.nm.nanowiki.ENanoMapperRDFReader in project ambit-mirror by ideaconsult.

the class ENanoMapperRDFTest method testRoundtrip.

@Test
public void testRoundtrip() throws Exception {
    ENanoMapperRDFReader reader = null;
    Request hack = new Request();
    hack.setRootRef(new Reference("http://localhost/ambit2"));
    SubstanceRDFReporter r = new SubstanceRDFReporter(hack, MediaType.TEXT_RDF_N3);
    Model model = ModelFactory.createDefaultModel();
    r.header(model, null);
    r.setOutput(model);
    try {
        reader = new ENanoMapperRDFReader(new InputStreamReader(new FileInputStream(getRDFFile())), "DEMO");
        while (reader.hasNext()) {
            IStructureRecord record = reader.nextRecord();
            Assert.assertTrue(record instanceof SubstanceRecord);
            r.processItem((SubstanceRecord) record);
        }
        r.footer(model, null);
        File output = new File(System.getProperty("java.io.tmpdir") + "/" + "enmrdf_export.ttl");
        System.out.println("Exported to " + output.getAbsolutePath());
        OutputStream writer = new FileOutputStream(output);
        RDFDataMgr.write(writer, model, RDFFormat.TURTLE);
    } finally {
        if (reader != null)
            reader.close();
    }
}