Example usage for java.lang Integer valueOf

List of usage examples for java.lang Integer valueOf

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Introduction

In this page you can find the example usage for java.lang Integer valueOf.

Prototype

@HotSpotIntrinsicCandidate
public static Integer valueOf(int i)

Source Link

Document

Returns an Integer instance representing the specified int value.

Usage

From source file:com.twitter.heron.healthmgr.HealthManager.java

public static void main(String[] args) throws Exception {
    CommandLineParser parser = new DefaultParser();
    Options slaManagerCliOptions = constructCliOptions();

    // parse the help options first.
    Options helpOptions = constructHelpOptions();
    CommandLine cmd = parser.parse(helpOptions, args, true);
    if (cmd.hasOption("h")) {
        usage(slaManagerCliOptions);/*w ww.  j ava  2 s  . c o  m*/
        return;
    }

    try {
        cmd = parser.parse(slaManagerCliOptions, args);
    } catch (ParseException e) {
        usage(slaManagerCliOptions);
        throw new RuntimeException("Error parsing command line options: ", e);
    }

    HealthManagerMode mode = HealthManagerMode.cluster;
    if (hasOption(cmd, CliArgs.MODE)) {
        mode = HealthManagerMode.valueOf(getOptionValue(cmd, CliArgs.MODE));
    }

    Config config;
    switch (mode) {
    case cluster:
        config = Config.toClusterMode(Config.newBuilder().putAll(ConfigLoader.loadClusterConfig())
                .putAll(commandLineConfigs(cmd)).build());
        break;

    case local:
        if (!hasOption(cmd, CliArgs.HERON_HOME) || !hasOption(cmd, CliArgs.CONFIG_PATH)) {
            throw new IllegalArgumentException("Missing heron_home or config_path argument");
        }
        String heronHome = getOptionValue(cmd, CliArgs.HERON_HOME);
        String configPath = getOptionValue(cmd, CliArgs.CONFIG_PATH);
        config = Config.toLocalMode(
                Config.newBuilder().putAll(ConfigLoader.loadConfig(heronHome, configPath, null, null))
                        .putAll(commandLineConfigs(cmd)).build());
        break;

    default:
        throw new IllegalArgumentException("Invalid mode: " + getOptionValue(cmd, CliArgs.MODE));
    }

    setupLogging(cmd, config);

    LOG.info("Static Heron config loaded successfully ");
    LOG.fine(config.toString());

    // load the default config value and override with any command line values
    String metricSourceClassName = config.getStringValue(PolicyConfigKey.METRIC_SOURCE_TYPE.key());
    metricSourceClassName = getOptionValue(cmd, CliArgs.METRIC_SOURCE_TYPE, metricSourceClassName);

    String metricsUrl = config.getStringValue(PolicyConfigKey.METRIC_SOURCE_URL.key());
    metricsUrl = getOptionValue(cmd, CliArgs.METRIC_SOURCE_URL, metricsUrl);

    AbstractModule module = buildMetricsProviderModule(metricsUrl, metricSourceClassName);
    HealthManager healthManager = new HealthManager(config, module);

    LOG.info("Initializing health manager");
    healthManager.initialize();

    LOG.info("Starting Health Manager metirc posting thread");
    HealthManagerMetrics publishingMetricsRunnable = null;
    if (hasOption(cmd, CliArgs.METRICSMGR_PORT)) {
        publishingMetricsRunnable = new HealthManagerMetrics(
                Integer.valueOf(getOptionValue(cmd, CliArgs.METRICSMGR_PORT)));
    }

    LOG.info("Starting Health Manager");
    PoliciesExecutor policyExecutor = new PoliciesExecutor(healthManager.healthPolicies);
    ScheduledFuture<?> future = policyExecutor.start();
    if (publishingMetricsRunnable != null) {
        new Thread(publishingMetricsRunnable).start();
    }
    try {
        future.get();
    } finally {
        policyExecutor.destroy();
        if (publishingMetricsRunnable != null) {
            publishingMetricsRunnable.close();
        }
    }
}

From source file:com.antbrains.crf.hadoop.ParallelTraining.java

public static void main(String[] args) throws Exception {
    Configuration conf = new Configuration();
    String[] otherArgs = new GenericOptionsParser(conf, args).getRemainingArgs();
    if (otherArgs.length != 4) {
        System.err.println("ParallelTraining <instanceDir> <outDir> <featurecount> <training-params>");
        System.exit(-1);/*from www . j a  v  a2  s .  co m*/
    }
    int featureCount = Integer.valueOf(otherArgs[2]);
    // conf.set("tc", object2String(tc));

    conf.set("pt.iterate", "1");
    conf.set("pt.featureCount", featureCount + "");

    TrainingParams params = SgdCrf.loadParams(otherArgs[3]);
    System.out.println(new Gson().toJson(params));
    conf.set("pt.params", object2String(params));

    Job job = new Job(conf, ParallelTraining.class.getSimpleName());

    job.setJarByClass(ParallelTraining.class);
    job.setMapperClass(TrainingMapper.class);
    job.setReducerClass(TrainingReducer.class);

    job.setOutputFormatClass(SequenceFileOutputFormat.class);

    job.setOutputKeyClass(NullWritable.class);
    job.setOutputValueClass(TrainingWeights.class);
    FileInputFormat.addInputPath(job, new Path(otherArgs[0]));
    FileOutputFormat.setOutputPath(job, new Path(otherArgs[1]));

    System.exit(job.waitForCompletion(true) ? 0 : 1);
}

From source file:org.biopax.validator.BiopaxValidatorClient.java

/**
 * Checks BioPAX files using the online BioPAX Validator. 
 * //from  w  w w  .j a v  a2  s  .  c o m
 * @see <a href="http://www.biopax.org/validator">BioPAX Validator Webservice</a>
 * 
 * @param argv
 * @throws IOException
 */
public static void main(String[] argv) throws IOException {
    if (argv.length == 0) {
        System.err.println("Available parameters: \n"
                + "<path> <output> [xml|html|biopax] [auto-fix] [only-errors] [maxerrors=n] [notstrict]\n"
                + "\t- validate a BioPAX file/directory (up to ~25MB in total size, -\n"
                + "\totherwise, please use the biopax-validator.jar instead)\n"
                + "\tin the directory using the online BioPAX Validator service\n"
                + "\t(generates html or xml report, or gets the processed biopax\n"
                + "\t(cannot fix all errros though) see http://www.biopax.org/validator)");
        System.exit(-1);
    }

    final String input = argv[0];
    final String output = argv[1];

    File fileOrDir = new File(input);
    if (!fileOrDir.canRead()) {
        System.err.println("Cannot read from " + input);
        System.exit(-1);
    }
    if (output == null || output.isEmpty()) {
        System.err.println("No output file specified (for the validation report).");
        System.exit(-1);
    }

    // default options
    RetFormat outf = RetFormat.HTML;
    boolean fix = false;
    Integer maxErrs = null;
    Behavior level = null; //will report both errors and warnings
    String profile = null;

    // match optional arguments
    for (int i = 2; i < argv.length; i++) {
        if ("html".equalsIgnoreCase(argv[i])) {
            outf = RetFormat.HTML;
        } else if ("xml".equalsIgnoreCase(argv[i])) {
            outf = RetFormat.XML;
        } else if ("biopax".equalsIgnoreCase(argv[i])) {
            outf = RetFormat.OWL;
        } else if ("auto-fix".equalsIgnoreCase(argv[i])) {
            fix = true;
        } else if ("only-errors".equalsIgnoreCase(argv[i])) {
            level = Behavior.ERROR;
        } else if ((argv[i]).toLowerCase().startsWith("maxerrors=")) {
            String num = argv[i].substring(10);
            maxErrs = Integer.valueOf(num);
        } else if ("notstrict".equalsIgnoreCase(argv[i])) {
            profile = "notstrict";
        }
    }

    // collect files
    Collection<File> files = new HashSet<File>();

    if (fileOrDir.isDirectory()) {
        // validate all the OWL files in the folder
        FilenameFilter filter = new FilenameFilter() {
            public boolean accept(File dir, String name) {
                return (name.endsWith(".owl"));
            }
        };

        for (String s : fileOrDir.list(filter)) {
            files.add(new File(fileOrDir.getCanonicalPath() + File.separator + s));
        }
    } else {
        files.add(fileOrDir);
    }

    // upload and validate using the default URL: http://www.biopax.org/biopax-validator/check.html        
    if (!files.isEmpty()) {
        BiopaxValidatorClient val = new BiopaxValidatorClient();
        val.validate(fix, profile, outf, level, maxErrs, null, files.toArray(new File[] {}),
                new FileOutputStream(output));
    }
}

From source file:edu.msu.cme.rdp.alignment.pairwise.PairwiseKNN.java

public static void main(String[] args) throws Exception {
    File queryFile;/* www  .  j  av  a 2 s  . c o m*/
    File refFile;
    AlignmentMode mode = AlignmentMode.glocal;
    int k = 1;
    int wordSize = 0;
    int prefilter = 10; //  The top p closest protein targets
    PrintStream out = new PrintStream(System.out);

    Options options = new Options();
    options.addOption("m", "mode", true,
            "Alignment mode {global, glocal, local, overlap, overlap_trimmed} (default= glocal)");
    options.addOption("k", true, "K-nearest neighbors to return. (default = 1)");
    options.addOption("o", "out", true, "Redirect output to file instead of stdout");
    options.addOption("p", "prefilter", true,
            "The top p closest targets from kmer prefilter step. Set p=0 to disable the prefilter step. (default = 10) ");
    options.addOption("w", "word-size", true,
            "The word size used to find closest targets during prefilter. (default "
                    + ProteinWordGenerator.WORDSIZE + " for protein, " + GoodWordIterator.DEFAULT_WORDSIZE
                    + " for nucleotide)");

    try {
        CommandLine line = new PosixParser().parse(options, args);

        if (line.hasOption("mode")) {
            mode = AlignmentMode.valueOf(line.getOptionValue("mode"));
        }

        if (line.hasOption('k')) {
            k = Integer.valueOf(line.getOptionValue('k'));
            if (k < 1) {
                throw new Exception("k must be at least 1");
            }
        }

        if (line.hasOption("word-size")) {
            wordSize = Integer.parseInt(line.getOptionValue("word-size"));
            if (wordSize < 3) {
                throw new Exception("Word size must be at least 3");
            }
        }
        if (line.hasOption("prefilter")) {
            prefilter = Integer.parseInt(line.getOptionValue("prefilter"));
            // prefilter == 0 means no prefilter
            if (prefilter > 0 && prefilter < k) {
                throw new Exception("prefilter must be at least as big as k " + k);
            }
        }

        if (line.hasOption("out")) {
            out = new PrintStream(line.getOptionValue("out"));
        }

        args = line.getArgs();

        if (args.length != 2) {
            throw new Exception("Unexpected number of command line arguments");
        }

        queryFile = new File(args[0]);
        refFile = new File(args[1]);

    } catch (Exception e) {
        new HelpFormatter().printHelp("PairwiseKNN <options> <queryFile> <dbFile>", options);
        System.err.println("ERROR: " + e.getMessage());
        return;
    }

    PairwiseKNN theObj = new PairwiseKNN(queryFile, refFile, out, mode, k, wordSize, prefilter);
    theObj.match();

}

From source file:io.anserini.index.UserPostFrequencyDistribution.java

@SuppressWarnings("static-access")
public static void main(String[] args) throws Exception {
    Options options = new Options();

    options.addOption(new Option(HELP_OPTION, "show help"));

    options.addOption(new Option(STORE_TERM_VECTORS_OPTION, "store term vectors"));

    options.addOption(OptionBuilder.withArgName("collection").hasArg()
            .withDescription("source collection directory").create(COLLECTION_OPTION));
    options.addOption(OptionBuilder.withArgName("property").hasArg()
            .withDescription("source collection directory").create("property"));
    options.addOption(OptionBuilder.withArgName("collection_pattern").hasArg()
            .withDescription("source collection directory").create("collection_pattern"));

    CommandLine cmdline = null;/*from   w  w  w. jav a2s.com*/
    CommandLineParser parser = new GnuParser();
    try {
        cmdline = parser.parse(options, args);
    } catch (ParseException exp) {
        System.err.println("Error parsing command line: " + exp.getMessage());
        System.exit(-1);
    }

    if (cmdline.hasOption(HELP_OPTION) || !cmdline.hasOption(COLLECTION_OPTION)) {
        HelpFormatter formatter = new HelpFormatter();
        formatter.printHelp(UserPostFrequencyDistribution.class.getName(), options);
        System.exit(-1);
    }

    String collectionPath = cmdline.getOptionValue(COLLECTION_OPTION);

    final FieldType textOptions = new FieldType();
    textOptions.setIndexOptions(IndexOptions.DOCS_AND_FREQS_AND_POSITIONS);
    textOptions.setStored(true);
    textOptions.setTokenized(true);
    textOptions.setStoreTermVectors(true);

    LOG.info("collection: " + collectionPath);
    LOG.info("collection_pattern " + cmdline.getOptionValue("collection_pattern"));
    LOG.info("property " + cmdline.getOptionValue("property"));
    LongOpenHashSet deletes = null;

    long startTime = System.currentTimeMillis();
    File file = new File(collectionPath);
    if (!file.exists()) {
        System.err.println("Error: " + file + " does not exist!");
        System.exit(-1);
    }

    final JsonStatusCorpusReader stream = new JsonStatusCorpusReader(file,
            cmdline.getOptionValue("collection_pattern"));

    Runtime.getRuntime().addShutdownHook(new Thread() {
        public void run() {

            try {

                stream.close();
            } catch (IOException e1) {
                // TODO Auto-generated catch block
                e1.printStackTrace();
            }
            ;

            System.out.println("# of users indexed this round: " + userIndexedCount);

            System.out.println("Shutting down");

        }
    });
    Status status;
    boolean readerNotInitialized = true;

    try {
        Properties prop = new Properties();
        while ((status = stream.next()) != null) {

            // try{
            // status = DataObjectFactory.createStatus(s);
            // if (status==null||status.getText() == null) {
            // continue;
            // }}catch(Exception e){
            //
            // }
            //

            boolean pittsburghRelated = false;
            try {

                if (Math.abs(status.getLongitude() - pittsburghLongitude) < 0.05d
                        && Math.abs(status.getlatitude() - pittsburghLatitude) < 0.05d)
                    pittsburghRelated = true;
            } catch (Exception e) {

            }
            try {
                if (status.getPlace().contains("Pittsburgh, PA"))
                    pittsburghRelated = true;
            } catch (Exception e) {

            }
            try {
                if (status.getUserLocation().contains("Pittsburgh, PA"))
                    pittsburghRelated = true;
            } catch (Exception e) {

            }

            try {
                if (status.getText().contains("Pittsburgh"))
                    pittsburghRelated = true;
            } catch (Exception e) {

            }

            if (pittsburghRelated) {

                int previousPostCount = 0;

                if (prop.containsKey(String.valueOf(status.getUserid()))) {
                    previousPostCount = Integer
                            .valueOf(prop.getProperty(String.valueOf(status.getUserid())).split(" ")[1]);
                }

                prop.setProperty(String.valueOf(status.getUserid()),
                        String.valueOf(status.getStatusesCount()) + " " + (1 + previousPostCount));
                if (prop.size() > 0 && prop.size() % 1000 == 0) {
                    Runtime runtime = Runtime.getRuntime();
                    runtime.gc();
                    System.out.println("Property size " + prop.size() + "Memory used:  "
                            + ((runtime.totalMemory() - runtime.freeMemory()) / (1024L * 1024L)) + " MB\n");
                }
                OutputStream output = new FileOutputStream(cmdline.getOptionValue("property"), false);
                prop.store(output, null);
                output.close();

            }
        }
        //         prop.store(output, null);
        LOG.info(String.format("Total of %s statuses added", userIndexedCount));
        LOG.info("Total elapsed time: " + (System.currentTimeMillis() - startTime) + "ms");
    } catch (Exception e) {
        e.printStackTrace();
    } finally {

        stream.close();
    }
}

From source file:Pathway2RDFv2.java

public static void main(String[] args) throws ParserConfigurationException, SAXException, IOException,
        ServiceException, ClassNotFoundException, IDMapperException, ParseException {

    int softwareVersion = 0;
    int schemaVersion = 0;
    int latestRevision = 0;

    BioDataSource.init();//from w  ww .j ava 2  s.  co m
    Class.forName("org.bridgedb.rdb.IDMapperRdb");
    File dir = new File("/Users/andra/Downloads/bridge");
    File[] bridgeDbFiles = dir.listFiles();
    IDMapperStack mapper = new IDMapperStack();
    for (File bridgeDbFile : bridgeDbFiles) {
        System.out.println(bridgeDbFile.getAbsolutePath());
        mapper.addIDMapper("idmapper-pgdb:" + bridgeDbFile.getAbsolutePath());
    }

    Model bridgeDbmodel = ModelFactory.createDefaultModel();
    InputStream in = new FileInputStream("/tmp/BioDataSource.ttl");
    bridgeDbmodel.read(in, "", "TURTLE");

    WikiPathwaysClient client = new WikiPathwaysClient(
            new URL("http://www.wikipathways.org/wpi/webservice/webservice.php"));

    basicCalls.printMemoryStatus();

    //Map wikipathway organisms to NCBI organisms
    HashMap<String, String> organismTaxonomy = wpRelatedCalls.getOrganismsTaxonomyMapping();
    //HashMap<String, String> miriamSources = new HashMap<String, String>();
    //      HashMap<String, Str ing> miriamLinks = basicCalls.getMiriamUriBridgeDb();

    //Document wikiPathwaysDom = basicCalls.openXmlFile(args[0]);
    Document wikiPathwaysDom = basicCalls.openXmlFile("/tmp/WpGPML.xml");

    //initiate the Jena model to be populated
    Model model = ModelFactory.createDefaultModel();
    Model voidModel = ModelFactory.createDefaultModel();

    voidModel.setNsPrefix("xsd", XSD.getURI());
    voidModel.setNsPrefix("void", Void.getURI());
    voidModel.setNsPrefix("wprdf", "http://rdf.wikipathways.org/");
    voidModel.setNsPrefix("pav", Pav.getURI());
    voidModel.setNsPrefix("prov", Prov.getURI());
    voidModel.setNsPrefix("dcterms", DCTerms.getURI());
    voidModel.setNsPrefix("biopax", Biopax_level3.getURI());
    voidModel.setNsPrefix("gpml", Gpml.getURI());
    voidModel.setNsPrefix("wp", Wp.getURI());
    voidModel.setNsPrefix("foaf", FOAF.getURI());
    voidModel.setNsPrefix("hmdb", "http://identifiers.org/hmdb/");
    voidModel.setNsPrefix("freq", Freq.getURI());
    voidModel.setNsPrefix("dc", DC.getURI());
    setModelPrefix(model);

    //Populate void.ttl
    Calendar now = Calendar.getInstance();
    Literal nowLiteral = voidModel.createTypedLiteral(now);
    Literal titleLiteral = voidModel.createLiteral("WikiPathways-RDF VoID Description", "en");
    Literal descriptionLiteral = voidModel
            .createLiteral("This is the VoID description for a WikiPathwyas-RDF dataset.", "en");
    Resource voidBase = voidModel.createResource("http://rdf.wikipathways.org/");
    Resource identifiersOrg = voidModel.createResource("http://identifiers.org");
    Resource wpHomeBase = voidModel.createResource("http://www.wikipathways.org/");
    Resource authorResource = voidModel
            .createResource("http://semantics.bigcat.unimaas.nl/figshare/search_author.php?author=waagmeester");
    Resource apiResource = voidModel
            .createResource("http://www.wikipathways.org/wpi/webservice/webservice.php");
    Resource mainDatadump = voidModel.createResource("http://rdf.wikipathways.org/wpContent.ttl.gz");
    Resource license = voidModel.createResource("http://creativecommons.org/licenses/by/3.0/");
    Resource instituteResource = voidModel.createResource("http://dbpedia.org/page/Maastricht_University");
    voidBase.addProperty(RDF.type, Void.Dataset);
    voidBase.addProperty(DCTerms.title, titleLiteral);
    voidBase.addProperty(DCTerms.description, descriptionLiteral);
    voidBase.addProperty(FOAF.homepage, wpHomeBase);
    voidBase.addProperty(DCTerms.license, license);
    voidBase.addProperty(Void.uriSpace, voidBase);
    voidBase.addProperty(Void.uriSpace, identifiersOrg);
    voidBase.addProperty(Pav.importedBy, authorResource);
    voidBase.addProperty(Pav.importedFrom, apiResource);
    voidBase.addProperty(Pav.importedOn, nowLiteral);
    voidBase.addProperty(Void.dataDump, mainDatadump);
    voidBase.addProperty(Voag.frequencyOfChange, Freq.Irregular);
    voidBase.addProperty(Pav.createdBy, authorResource);
    voidBase.addProperty(Pav.createdAt, instituteResource);
    voidBase.addLiteral(Pav.createdOn, nowLiteral);
    voidBase.addProperty(DCTerms.subject, Biopax_level3.Pathway);
    voidBase.addProperty(Void.exampleResource,
            voidModel.createResource("http://identifiers.org/ncbigene/2678"));
    voidBase.addProperty(Void.exampleResource,
            voidModel.createResource("http://identifiers.org/pubmed/15215856"));
    voidBase.addProperty(Void.exampleResource,
            voidModel.createResource("http://identifiers.org/hmdb/HMDB02005"));
    voidBase.addProperty(Void.exampleResource, voidModel.createResource("http://rdf.wikipathways.org/WP15"));
    voidBase.addProperty(Void.exampleResource,
            voidModel.createResource("http://identifiers.org/obo.chebi/17242"));

    for (String organism : organismTaxonomy.values()) {
        voidBase.addProperty(DCTerms.subject,
                voidModel.createResource("http://dbpedia.org/page/" + organism.replace(" ", "_")));
    }
    voidBase.addProperty(Void.vocabulary, Biopax_level3.NAMESPACE);
    voidBase.addProperty(Void.vocabulary, voidModel.createResource(Wp.getURI()));
    voidBase.addProperty(Void.vocabulary, voidModel.createResource(Gpml.getURI()));
    voidBase.addProperty(Void.vocabulary, FOAF.NAMESPACE);
    voidBase.addProperty(Void.vocabulary, Pav.NAMESPACE);
    //Custom Properties
    String baseUri = "http://rdf.wikipathways.org/";
    NodeList pathwayElements = wikiPathwaysDom.getElementsByTagName("Pathway");

    //BioDataSource.init();
    for (int i = 0; i < pathwayElements.getLength(); i++) {
        Model pathwayModel = createPathwayModel();
        String wpId = pathwayElements.item(i).getAttributes().getNamedItem("identifier").getTextContent();
        String revision = pathwayElements.item(i).getAttributes().getNamedItem("revision").getTextContent();
        String pathwayOrganism = "";
        if (pathwayElements.item(i).getAttributes().getNamedItem("Organism") != null)
            pathwayOrganism = pathwayElements.item(i).getAttributes().getNamedItem("Organism").getTextContent()
                    .trim();
        if (Integer.valueOf(revision) > latestRevision) {
            latestRevision = Integer.valueOf(revision);
        }
        File f = new File("/tmp/" + args[0] + "/" + wpId + "_r" + revision + ".ttl");
        System.out.println(f.getName());
        if (!f.exists()) {

            Resource voidPwResource = wpRelatedCalls.addVoidTriples(voidModel, voidBase,
                    pathwayElements.item(i), client);
            Resource pwResource = wpRelatedCalls.addPathwayLevelTriple(pathwayModel, pathwayElements.item(i),
                    organismTaxonomy);

            // Get the comments
            NodeList commentElements = ((Element) pathwayElements.item(i)).getElementsByTagName("Comment");
            wpRelatedCalls.addCommentTriples(pathwayModel, pwResource, commentElements, wpId, revision);
            // Get the Groups
            NodeList groupElements = ((Element) pathwayElements.item(i)).getElementsByTagName("Group");
            for (int n = 0; n < groupElements.getLength(); n++) {
                wpRelatedCalls.addGroupTriples(pathwayModel, pwResource, groupElements.item(n), wpId, revision);
            }
            // Get all the Datanodes
            NodeList dataNodesElement = ((Element) pathwayElements.item(i)).getElementsByTagName("DataNode");
            for (int j = 0; j < dataNodesElement.getLength(); j++) {
                wpRelatedCalls.addDataNodeTriples(pathwayModel, pwResource, dataNodesElement.item(j), wpId,
                        revision, bridgeDbmodel, mapper);
            }
            // Get all the lines
            NodeList linesElement = ((Element) pathwayElements.item(i)).getElementsByTagName("Line");
            for (int k = 0; k < linesElement.getLength(); k++) {
                wpRelatedCalls.addLineTriples(pathwayModel, pwResource, linesElement.item(k), wpId, revision);
            }
            //Get all the labels
            NodeList labelsElement = ((Element) pathwayElements.item(i)).getElementsByTagName("Label");
            for (int l = 0; l < labelsElement.getLength(); l++) {
                wpRelatedCalls.addLabelTriples(pathwayModel, pwResource, labelsElement.item(l), wpId, revision);
            }
            NodeList referenceElements = ((Element) pathwayElements.item(i))
                    .getElementsByTagName("bp:PublicationXref");
            for (int m = 0; m < referenceElements.getLength(); m++) {
                wpRelatedCalls.addReferenceTriples(pathwayModel, pwResource, referenceElements.item(m), wpId,
                        revision);
            }
            NodeList referenceElements2 = ((Element) pathwayElements.item(i))
                    .getElementsByTagName("bp:publicationXref");
            for (int m = 0; m < referenceElements2.getLength(); m++) {
                wpRelatedCalls.addReferenceTriples(pathwayModel, pwResource, referenceElements2.item(m), wpId,
                        revision);
            }
            NodeList referenceElements3 = ((Element) pathwayElements.item(i))
                    .getElementsByTagName("bp:PublicationXRef");
            for (int m = 0; m < referenceElements3.getLength(); m++) {
                wpRelatedCalls.addReferenceTriples(pathwayModel, pwResource, referenceElements3.item(m), wpId,
                        revision);
            }

            NodeList ontologyElements = ((Element) pathwayElements.item(i))
                    .getElementsByTagName("bp:openControlledVocabulary");
            for (int n = 0; n < ontologyElements.getLength(); n++) {
                wpRelatedCalls.addPathwayOntologyTriples(pathwayModel, pwResource, ontologyElements.item(n));
            }
            System.out.println(wpId);
            basicCalls.saveRDF2File(pathwayModel, "/tmp/" + args[0] + "/" + wpId + "_r" + revision + ".ttl",
                    "TURTLE");

            model.add(pathwayModel);
            pathwayModel.removeAll();
        }
    }
    Date myDate = new Date();
    SimpleDateFormat sdf = new SimpleDateFormat("yyyyMMdd");
    String myDateString = sdf.format(myDate);
    FileUtils.writeStringToFile(new File("latestVersion.txt"),
            "v" + schemaVersion + "." + softwareVersion + "." + latestRevision + "_" + myDateString);
    basicCalls.saveRDF2File(model, "/tmp/wpContent_v" + schemaVersion + "." + softwareVersion + "."
            + latestRevision + "_" + myDateString + ".ttl", "TURTLE");
    basicCalls.saveRDF2File(voidModel, "/tmp/void.ttl", "TURTLE");
}

From source file:de.tudarmstadt.ukp.teaching.uima.nounDecompounding.web1t.LuceneIndexer.java

/**
 * Execute the indexer. Following parameter are allowed:
 * //w  w w. j  av a2s  . co  m
 *   * --web1t The folder with all extracted n-gram files
 *   * --outputPath The lucene index folder
 *   * --index (optional) Number of how many indexes should be created. Default: 1
 * 
 * @param args
 */
@SuppressWarnings("static-access")
public static void main(String[] args) {
    Options options = new Options();
    options.addOption(OptionBuilder.withLongOpt("web1t")
            .withDescription("Folder with the web1t extracted documents").hasArg().isRequired().create());
    options.addOption(OptionBuilder.withLongOpt("outputPath")
            .withDescription("File, where the index should be created").hasArg().isRequired().create());
    options.addOption(OptionBuilder.withLongOpt("index")
            .withDescription("(optional) Number of how many indexes should be created. Default: 1").hasArg()
            .create());
    options.addOption(OptionBuilder.withLongOpt("igerman98").withDescription(
            "(optional) If this argument is set, only words of the german dictionary will be added to the index")
            .create());

    CommandLineParser parser = new PosixParser();
    try {
        CommandLine cmd = parser.parse(options, args);

        int i = 1;
        if (cmd.hasOption("index")) {
            i = Integer.valueOf(cmd.getOptionValue("index"));
        }

        LuceneIndexer indexer = new LuceneIndexer(new File(cmd.getOptionValue("web1t")),
                new File(cmd.getOptionValue("outputPath")), i);

        if (cmd.hasOption("igerman98")) {
            indexer.setDictionary(new IGerman98Dictionary(new File("src/main/resources/de_DE.dic"),
                    new File("src/main/resources/de_DE.aff")));
        }

        indexer.index();
    } catch (Exception e) {
        System.err.println("Error: " + e.getMessage());

        HelpFormatter formatter = new HelpFormatter();
        formatter.printHelp("LuceneIndexer", options);
    }
}

From source file:Main.java

public static void staticMethod() {
    Integer intObj1 = Integer.valueOf(100);
    Integer intObj2 = Integer.valueOf("2014");
    Double doubleObj1 = Double.valueOf(10.45);
    Double doubleObj2 = Double.valueOf("234.56");
    Character charObj1 = Character.valueOf('A');
}

From source file:Main.java

public static int parseInt(String integer) {
    return Integer.valueOf(integer);
}

From source file:Main.java

public static int calcRegistID(String strID) {
    int intID = Integer.valueOf(strID).intValue();
    return (intID - 65535) / 255;
}