Example usage for org.apache.commons.cli CommandLineParser parse

List of usage examples for org.apache.commons.cli CommandLineParser parse

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Introduction

In this page you can find the example usage for org.apache.commons.cli CommandLineParser parse.

Prototype

CommandLine parse(Options options, String[] arguments) throws ParseException;

Source Link

Document

Parse the arguments according to the specified options.

Usage

From source file:com.artofsolving.jodconverter.cli.ConvertDocument.java

public static void main(String[] arguments) throws Exception {
    CommandLineParser commandLineParser = new PosixParser();
    CommandLine commandLine = commandLineParser.parse(OPTIONS, arguments);

    int port = SocketOpenOfficeConnection.DEFAULT_PORT;
    if (commandLine.hasOption(OPTION_PORT.getOpt())) {
        port = Integer.parseInt(commandLine.getOptionValue(OPTION_PORT.getOpt()));
    }//from   w  ww .j a va  2  s.c om

    String outputFormat = null;
    if (commandLine.hasOption(OPTION_OUTPUT_FORMAT.getOpt())) {
        outputFormat = commandLine.getOptionValue(OPTION_OUTPUT_FORMAT.getOpt());
    }

    boolean verbose = false;
    if (commandLine.hasOption(OPTION_VERBOSE.getOpt())) {
        verbose = true;
    }

    DocumentFormatRegistry registry;
    if (commandLine.hasOption(OPTION_XML_REGISTRY.getOpt())) {
        File registryFile = new File(commandLine.getOptionValue(OPTION_XML_REGISTRY.getOpt()));
        if (!registryFile.isFile()) {
            System.err.println("ERROR: specified XML registry file not found: " + registryFile);
            System.exit(EXIT_CODE_XML_REGISTRY_NOT_FOUND);
        }
        registry = new XmlDocumentFormatRegistry(new FileInputStream(registryFile));
        if (verbose) {
            System.out.println("-- loaded document format registry from " + registryFile);
        }
    } else {
        registry = new DefaultDocumentFormatRegistry();
    }

    String[] fileNames = commandLine.getArgs();
    if ((outputFormat == null && fileNames.length != 2) || fileNames.length < 1) {
        String syntax = "convert [options] input-file output-file; or\n"
                + "[options] -f output-format input-file [input-file...]";
        HelpFormatter helpFormatter = new HelpFormatter();
        helpFormatter.printHelp(syntax, OPTIONS);
        System.exit(EXIT_CODE_TOO_FEW_ARGS);
    }

    OpenOfficeConnection connection = new SocketOpenOfficeConnection(port);
    try {
        if (verbose) {
            System.out.println("-- connecting to OpenOffice.org on port " + port);
        }
        connection.connect();
    } catch (ConnectException officeNotRunning) {
        System.err.println(
                "ERROR: connection failed. Please make sure OpenOffice.org is running and listening on port "
                        + port + ".");
        System.exit(EXIT_CODE_CONNECTION_FAILED);
    }
    try {
        DocumentConverter converter = new OpenOfficeDocumentConverter(connection, registry);
        if (outputFormat == null) {
            File inputFile = new File(fileNames[0]);
            File outputFile = new File(fileNames[1]);
            convertOne(converter, inputFile, outputFile, verbose);
        } else {
            for (int i = 0; i < fileNames.length; i++) {
                File inputFile = new File(fileNames[i]);
                File outputFile = new File(FilenameUtils.getFullPath(fileNames[i])
                        + FilenameUtils.getBaseName(fileNames[i]) + "." + outputFormat);
                convertOne(converter, inputFile, outputFile, verbose);
            }
        }
    } finally {
        if (verbose) {
            System.out.println("-- disconnecting");
        }
        connection.disconnect();
    }
}

From source file:com.genentech.chemistry.tool.SDFFilter.java

public static void main(String args[]) {
    String usage = "java sdfFilter [options]\n" + "Filters out molecules that contain the following:\n"
            + "1. More than maxHeavy atoms (default is 100)\n" + "2. Have more than one component\n"
            + "3. Does not have any atoms\n" + "4. Have invalid atoms, like R, * etc ...\n"
            + "5. Have atomic number greater than 53 (Iodine)";

    // create Options object
    Options options = new Options();
    // add  options
    options.addOption("h", false, "");
    options.addOption("in", true, "inFile in OE formats: Ex: a.sdf or .sdf");
    options.addOption("out", true, "outFile in OE formats. Ex: a.sdf or .sdf");
    options.addOption("filtered", true, "Optional: filteredFile in OE formats. Ex: a.sdf or .sdf");
    options.addOption("maxHeavy", true, "Number of heavy atom cutoff. Default is 100");
    CommandLineParser parser = new PosixParser();

    try {/*from w  ww  . j  a v  a  2  s.  c om*/
        CommandLine cmd = parser.parse(options, args);
        String inFile = cmd.getOptionValue("in");
        if (inFile == null) {
            HelpFormatter formatter = new HelpFormatter();
            formatter.printHelp(usage, options);
            System.exit(1);
        }

        String outFile = cmd.getOptionValue("out");
        if (outFile == null) {
            HelpFormatter formatter = new HelpFormatter();
            formatter.printHelp(usage, options);
            System.exit(1);
        }

        String filteredFile = null;
        if (cmd.hasOption("filtered")) {
            filteredFile = cmd.getOptionValue("filtered");
        }

        int maxHeavy = 100;
        if (cmd.hasOption("maxHeavy")) {
            maxHeavy = Integer.parseInt(cmd.getOptionValue("maxHeavy"));
            maxAtoms = maxHeavy;
        }

        if (cmd.hasOption("h")) {
            HelpFormatter formatter = new HelpFormatter();
            formatter.printHelp(usage, options);
            System.exit(1);
        }

        oemolistream ifs = new oemolistream(inFile);
        oemolostream ofs = new oemolostream(outFile);
        oemolostream ffs = null;
        if (filteredFile != null) {
            ffs = new oemolostream(filteredFile);
        }
        /*it appears that we don't have license to molprop toolkit
        oeisstream iss = new oeisstream();
        OEFilter filter = new OEFilter(iss);
        filter.SetTypeCheck(true);
        oechem.OEThrow.SetLevel(OEErrorLevel.Warning);
        */

        OEGraphMol mol = new OEGraphMol();

        while (oechem.OEReadMolecule(ifs, mol)) {
            //            if (passFilters(mol, filter)) { //needs license to molprop toolkit
            if (passFilters(mol)) {
                oechem.OEWriteMolecule(ofs, mol);
            } else {
                if (ffs != null) {
                    oechem.OEWriteMolecule(ffs, mol);
                }
            }
        }

    } catch (ParseException e) { // TODO print explaination
        throw new Error(e);
    }
}

From source file:com.act.biointerpretation.sars.SeqDBReactionGrouper.java

public static void main(String[] args) throws Exception {
    // Build command line parser.
    Options opts = new Options();
    for (Option.Builder b : OPTION_BUILDERS) {
        opts.addOption(b.build());/*w w w . j av a 2  s  .c  om*/
    }

    CommandLine cl = null;
    try {
        CommandLineParser parser = new DefaultParser();
        cl = parser.parse(opts, args);
    } catch (ParseException e) {
        LOGGER.error("Argument parsing failed: %s", e.getMessage());
        HELP_FORMATTER.printHelp(SeqDBReactionGrouper.class.getCanonicalName(), HELP_MESSAGE, opts, null, true);
        System.exit(1);
    }

    // Print help.
    if (cl.hasOption(OPTION_HELP)) {
        HELP_FORMATTER.printHelp(SeqDBReactionGrouper.class.getCanonicalName(), HELP_MESSAGE, opts, null, true);
        return;
    }

    // Handle arguments
    String mongoDBName = cl.getOptionValue(OPTION_DB);
    MongoDB mongoDB = new MongoDB(LOCAL_HOST, MONGO_PORT, mongoDBName);

    File outputFile = new File(cl.getOptionValue(OPTION_OUTPUT_PATH));
    if (outputFile.isDirectory() || outputFile.exists()) {
        LOGGER.error("Supplied output file is a directory or already exists.");
        System.exit(1);
    }
    outputFile.createNewFile();

    Integer limit = DEFAULT_LIMIT_INFINITY;
    if (cl.hasOption(OPTION_LIMIT)) {
        limit = Integer.parseInt(cl.getOptionValue(OPTION_LIMIT));
    }
    LOGGER.info("Only processing first %d entries in Seq DB.", limit);

    SeqDBReactionGrouper enzymeGrouper = new SeqDBReactionGrouper(mongoDB.getSeqIterator(), mongoDBName, limit);

    LOGGER.info("Scanning seq db for reactions with same seq.");
    ReactionGroupCorpus groupCorpus = enzymeGrouper.getReactionGroupCorpus();

    LOGGER.info("Writing output to file.");
    groupCorpus.printToJsonFile(outputFile);

    LOGGER.info("Complete!");
}

From source file:de.zazaz.iot.bosch.indego.util.IndegoMqttAdapter.java

public static void main(String[] args) {
    System.setProperty("log4j.configurationFile", "log4j2-indegoMqttAdapter-normal.xml");

    Options options = new Options();

    StringBuilder commandList = new StringBuilder();
    for (DeviceCommand cmd : DeviceCommand.values()) {
        if (commandList.length() > 0) {
            commandList.append(", ");
        }//from  w  ww .j  a  va2 s .  c o m
        commandList.append(cmd.toString());
    }

    options.addOption(Option //
            .builder("c") //
            .longOpt("config") //
            .desc("The configuration file to use") //
            .required() //
            .hasArg() //
            .build());
    options.addOption(Option //
            .builder("d") //
            .longOpt("debug") //
            .desc("Logs more details") //
            .build());
    options.addOption(Option //
            .builder("?") //
            .longOpt("help") //
            .desc("Prints this help") //
            .build());

    CommandLineParser parser = new DefaultParser();
    CommandLine cmds = null;
    try {
        cmds = parser.parse(options, args);
    } catch (ParseException ex) {
        System.err.println(ex.getMessage());
        System.err.println();
        HelpFormatter formatter = new HelpFormatter();
        formatter.printHelp(IndegoMqttAdapter.class.getName(), options);
        System.exit(1);
        return;
    }

    if (cmds.hasOption("?")) {
        HelpFormatter formatter = new HelpFormatter();
        formatter.printHelp(CmdLineTool.class.getName(), options);
        return;
    }

    if (cmds.hasOption("d")) {
        System.setProperty("log4j.configurationFile", "log4j2-indegoMqttAdapter-debug.xml");
    }

    String configFileName = cmds.getOptionValue('c');
    File configFile = new File(configFileName);

    if (!configFile.exists()) {
        System.err.println(String.format("The specified config file (%s) does not exist", configFileName));
        System.err.println();
        System.exit(2);
        return;
    }

    Properties properties = new Properties();
    try (InputStream in = new FileInputStream(configFile)) {
        properties.load(in);
    } catch (IOException ex) {
        System.err.println(ex.getMessage());
        System.err.println(String.format("Was not able to load the properties file (%s)", configFileName));
        System.err.println();
    }

    MqttIndegoAdapterConfiguration config = new MqttIndegoAdapterConfiguration();
    config.setIndegoBaseUrl(properties.getProperty("indego.mqtt.device.base-url"));
    config.setIndegoUsername(properties.getProperty("indego.mqtt.device.username"));
    config.setIndegoPassword(properties.getProperty("indego.mqtt.device.password"));
    config.setMqttBroker(properties.getProperty("indego.mqtt.broker.connection"));
    config.setMqttClientId(properties.getProperty("indego.mqtt.broker.client-id"));
    config.setMqttUsername(properties.getProperty("indego.mqtt.broker.username"));
    config.setMqttPassword(properties.getProperty("indego.mqtt.broker.password"));
    config.setMqttTopicRoot(properties.getProperty("indego.mqtt.broker.topic-root"));
    config.setPollingIntervalMs(Integer.parseInt(properties.getProperty("indego.mqtt.polling-interval-ms")));

    MqttIndegoAdapter adapter = new MqttIndegoAdapter(config);
    adapter.startup();
}

From source file:cc.twittertools.search.local.RunQueries.java

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

    options.addOption(//from www  .jav a2  s . c o m
            OptionBuilder.withArgName("path").hasArg().withDescription("index location").create(INDEX_OPTION));
    options.addOption(OptionBuilder.withArgName("num").hasArg().withDescription("number of results to return")
            .create(NUM_RESULTS_OPTION));
    options.addOption(OptionBuilder.withArgName("file").hasArg()
            .withDescription("file containing topics in TREC format").create(QUERIES_OPTION));
    options.addOption(OptionBuilder.withArgName("similarity").hasArg()
            .withDescription("similarity to use (BM25, LM)").create(SIMILARITY_OPTION));
    options.addOption(
            OptionBuilder.withArgName("string").hasArg().withDescription("runtag").create(RUNTAG_OPTION));
    options.addOption(new Option(VERBOSE_OPTION, "print out complete document"));

    CommandLine cmdline = null;
    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(QUERIES_OPTION) || !cmdline.hasOption(INDEX_OPTION)) {
        HelpFormatter formatter = new HelpFormatter();
        formatter.printHelp(RunQueries.class.getName(), options);
        System.exit(-1);
    }

    File indexLocation = new File(cmdline.getOptionValue(INDEX_OPTION));
    if (!indexLocation.exists()) {
        System.err.println("Error: " + indexLocation + " does not exist!");
        System.exit(-1);
    }

    String runtag = cmdline.hasOption(RUNTAG_OPTION) ? cmdline.getOptionValue(RUNTAG_OPTION) : DEFAULT_RUNTAG;

    String topicsFile = cmdline.getOptionValue(QUERIES_OPTION);

    int numResults = 1000;
    try {
        if (cmdline.hasOption(NUM_RESULTS_OPTION)) {
            numResults = Integer.parseInt(cmdline.getOptionValue(NUM_RESULTS_OPTION));
        }
    } catch (NumberFormatException e) {
        System.err.println("Invalid " + NUM_RESULTS_OPTION + ": " + cmdline.getOptionValue(NUM_RESULTS_OPTION));
        System.exit(-1);
    }

    String similarity = "LM";
    if (cmdline.hasOption(SIMILARITY_OPTION)) {
        similarity = cmdline.getOptionValue(SIMILARITY_OPTION);
    }

    boolean verbose = cmdline.hasOption(VERBOSE_OPTION);

    PrintStream out = new PrintStream(System.out, true, "UTF-8");

    IndexReader reader = DirectoryReader.open(FSDirectory.open(indexLocation));
    IndexSearcher searcher = new IndexSearcher(reader);

    if (similarity.equalsIgnoreCase("BM25")) {
        searcher.setSimilarity(new BM25Similarity());
    } else if (similarity.equalsIgnoreCase("LM")) {
        searcher.setSimilarity(new LMDirichletSimilarity(2500.0f));
    }

    QueryParser p = new QueryParser(Version.LUCENE_43, StatusField.TEXT.name, IndexStatuses.ANALYZER);

    TrecTopicSet topics = TrecTopicSet.fromFile(new File(topicsFile));
    for (TrecTopic topic : topics) {
        Query query = p.parse(topic.getQuery());
        Filter filter = NumericRangeFilter.newLongRange(StatusField.ID.name, 0L, topic.getQueryTweetTime(),
                true, true);

        TopDocs rs = searcher.search(query, filter, numResults);

        int i = 1;
        for (ScoreDoc scoreDoc : rs.scoreDocs) {
            Document hit = searcher.doc(scoreDoc.doc);
            out.println(String.format("%s Q0 %s %d %f %s", topic.getId(),
                    hit.getField(StatusField.ID.name).numericValue(), i, scoreDoc.score, runtag));
            if (verbose) {
                out.println("# " + hit.toString().replaceAll("[\\n\\r]+", " "));
            }
            i++;
        }
    }
    reader.close();
    out.close();
}

From source file:com.act.lcms.db.io.LoadStandardIonAnalysisTableIntoDB.java

public static void main(String[] args) throws Exception {
    Options opts = new Options();
    for (Option.Builder b : OPTION_BUILDERS) {
        opts.addOption(b.build());/*  w  w  w .  java  2 s  .com*/
    }

    CommandLine cl = null;

    try {
        CommandLineParser parser = new DefaultParser();
        cl = parser.parse(opts, args);
    } catch (ParseException e) {
        System.err.format("Argument parsing failed: %s\n", e.getMessage());
        HELP_FORMATTER.printHelp(LoadStandardIonAnalysisTableIntoDB.class.getCanonicalName(), HELP_MESSAGE,
                opts, null, true);
        System.exit(1);
    }

    if (cl.hasOption("help")) {
        HELP_FORMATTER.printHelp(LoadStandardIonAnalysisTableIntoDB.class.getCanonicalName(), HELP_MESSAGE,
                opts, null, true);
        return;
    }

    File inputFile = new File(cl.getOptionValue(OPTION_FILE_PATH));
    if (!inputFile.exists()) {
        System.err.format("Unable to find input file at %s\n", cl.getOptionValue(OPTION_FILE_PATH));
        new HelpFormatter().printHelp(LoadConstructAnalysisTableIntoDB.class.getCanonicalName(), opts, true);
        System.exit(1);
    }

    try (DB db = DB.openDBFromCLI(cl)) {
        db.getConn().setAutoCommit(false);

        TSVParser parser = new TSVParser();
        parser.parse(inputFile);

        for (Map<String, String> row : parser.getResults()) {
            Integer standardIonResultId = Integer.parseInt(row.get(
                    ExportStandardIonResultsFromDB.STANDARD_ION_HEADER_FIELDS.STANDARD_ION_RESULT_ID.name()));

            String dbValueOfMetlinIon = ExportStandardIonResultsFromDB.NULL_VALUE;
            StandardIonResult ionResult = StandardIonResult.getInstance().getById(db, standardIonResultId);
            if (ionResult.getManualOverrideId() != null) {
                // There is an existing manual override ion in the DB
                CuratedStandardMetlinIon curatedChemical = CuratedStandardMetlinIon.getBestMetlinIon(db,
                        ionResult.getManualOverrideId());
                dbValueOfMetlinIon = curatedChemical.getBestMetlinIon();
            }

            String manualPickOfMetlinIon = row
                    .get(ExportStandardIonResultsFromDB.STANDARD_ION_HEADER_FIELDS.MANUAL_PICK.name());

            // If the manual metlin ion pick row is not NULL and it is not the same as the value stored in the DB, then
            // we need to add a new entry to the curated metlin ion table.
            if (!manualPickOfMetlinIon.equals(ExportStandardIonResultsFromDB.NULL_VALUE)
                    && !manualPickOfMetlinIon.equals(dbValueOfMetlinIon)) {
                System.out.format("Manual override has been found, so updating the DB\n");
                // A manual entry was created.
                if (!MS1.VALID_MS1_IONS.contains(manualPickOfMetlinIon)) {
                    System.err.format("ERROR: found invalid chemical name: %s\n", manualPickOfMetlinIon);
                    System.exit(-1);
                }

                String note = row.get(ExportStandardIonResultsFromDB.STANDARD_ION_HEADER_FIELDS.NOTE.name());
                CuratedStandardMetlinIon result = CuratedStandardMetlinIon.insertCuratedStandardMetlinIonIntoDB(
                        db, LocalDateTime.now(CuratedStandardMetlinIon.utcDateTimeZone),
                        cl.getOptionValue(OPTION_AUTHOR), manualPickOfMetlinIon, note, standardIonResultId);

                if (result == null) {
                    System.err.format(
                            "WARNING: Could not insert curated entry to the curated metlin ion table\n",
                            manualPickOfMetlinIon);
                    System.exit(-1);
                } else {
                    StandardIonResult getIonResult = StandardIonResult.getInstance().getById(db,
                            standardIonResultId);
                    getIonResult.setManualOverrideId(result.getId());
                    if (!StandardIonResult.getInstance().update(db, getIonResult)) {
                        System.err.format(
                                "WARNING: Could not insert manual override id to the standard ion table\n",
                                manualPickOfMetlinIon);
                        System.exit(-1);
                    } else {
                        System.out.format(
                                "Successfully committed updates to the standard ion table and the curated metlin ion table\n");
                    }
                }
            }
        }

        db.getConn().commit();
    }
}

From source file:com.linkedin.restli.tools.data.FilterSchemaGenerator.java

public static void main(String[] args) {
    CommandLine cl = null;/*from   w  w  w  . j  a  v a 2s  .co  m*/
    try {
        final CommandLineParser parser = new GnuParser();
        cl = parser.parse(_options, args);
    } catch (ParseException e) {
        _log.error("Invalid arguments: " + e.getMessage());
        reportInvalidArguments();
    }

    final String[] directoryArgs = cl.getArgs();
    if (directoryArgs.length != 2) {
        reportInvalidArguments();
    }

    final File sourceDirectory = new File(directoryArgs[0]);
    if (!sourceDirectory.exists()) {
        _log.error(sourceDirectory.getPath() + " does not exist");
        System.exit(1);
    }
    if (!sourceDirectory.isDirectory()) {
        _log.error(sourceDirectory.getPath() + " is not a directory");
        System.exit(1);
    }
    final URI sourceDirectoryURI = sourceDirectory.toURI();

    final File outputDirectory = new File(directoryArgs[1]);
    if (outputDirectory.exists() && !sourceDirectory.isDirectory()) {
        _log.error(outputDirectory.getPath() + " is not a directory");
        System.exit(1);
    }

    final boolean isAvroMode = cl.hasOption('a');
    final String predicateExpression = cl.getOptionValue('e');
    final Predicate predicate = PredicateExpressionParser.parse(predicateExpression);

    final Collection<File> sourceFiles = FileUtil.listFiles(sourceDirectory, null);
    int exitCode = 0;
    for (File sourceFile : sourceFiles) {
        try {
            final ValidationOptions val = new ValidationOptions();
            val.setAvroUnionMode(isAvroMode);

            final SchemaParser schemaParser = new SchemaParser();
            schemaParser.setValidationOptions(val);

            schemaParser.parse(new FileInputStream(sourceFile));
            if (schemaParser.hasError()) {
                _log.error("Error parsing " + sourceFile.getPath() + ": " + schemaParser.errorMessageBuilder());
                exitCode = 1;
                continue;
            }

            final DataSchema originalSchema = schemaParser.topLevelDataSchemas().get(0);
            if (!(originalSchema instanceof NamedDataSchema)) {
                _log.error(sourceFile.getPath() + " does not contain valid NamedDataSchema");
                exitCode = 1;
                continue;
            }

            final SchemaParser filterParser = new SchemaParser();
            filterParser.setValidationOptions(val);

            final NamedDataSchema filteredSchema = Filters.removeByPredicate((NamedDataSchema) originalSchema,
                    predicate, filterParser);
            if (filterParser.hasError()) {
                _log.error("Error applying predicate: " + filterParser.errorMessageBuilder());
                exitCode = 1;
                continue;
            }

            final String relativePath = sourceDirectoryURI.relativize(sourceFile.toURI()).getPath();
            final String outputFilePath = outputDirectory.getPath() + File.separator + relativePath;
            final File outputFile = new File(outputFilePath);
            final File outputFileParent = outputFile.getParentFile();
            outputFileParent.mkdirs();
            if (!outputFileParent.exists()) {
                _log.error("Unable to write filtered schema to " + outputFileParent.getPath());
                exitCode = 1;
                continue;
            }

            FileOutputStream fout = new FileOutputStream(outputFile);
            String schemaJson = SchemaToJsonEncoder.schemaToJson(filteredSchema, JsonBuilder.Pretty.INDENTED);
            fout.write(schemaJson.getBytes(RestConstants.DEFAULT_CHARSET));
            fout.close();
        } catch (IOException e) {
            _log.error(e.getMessage());
            exitCode = 1;
        }
    }

    System.exit(exitCode);
}

From source file:gdv.xport.Main.java

/**
 * Diese Main-Klasse dient hautpsaechlich zu Demo-Zwecken. Werden keine Optionen angegeben, wird von der
 * Standard-Eingabe (System.in) gelesen und das Ergebnis nach System.out geschrieben. <br/>
 * Mit "-help" bekommt man eine kleine Uebersicht der Optionen.
 *
 * @param args/*www. j av  a 2s  .  c  o m*/
 *            die verschiendene Argumente (z.B. -import
 *            http://www.gdv-online.de/vuvm/musterdatei_bestand/musterdatei_041222.txt -validate -xml)
 * @throws IOException
 *             falls der Import oder Export schief gegangen ist
 * @throws XMLStreamException
 *             falls bei der XML-Generierung was schief gelaufen ist.
 */
public static void main(final String[] args) throws IOException, XMLStreamException {
    Options options = createOptions();
    CommandLineParser parser = new GnuParser();
    try {
        CommandLine cmd = parser.parse(options, args);
        // Option "-help"
        if (cmd.hasOption("help")) {
            printHelp(options);
            System.exit(0);
        }
        Datenpaket datenpaket = importDatenpaket(cmd);
        formatDatenpaket(cmd, datenpaket);
        // Option "-validate"
        if (cmd.hasOption("validate")) {
            printViolations(datenpaket.validate());
        }
    } catch (ParseException ex) {
        LOG.log(Level.SEVERE, "Cannot parse " + Arrays.toString(args), ex);
        System.err.println("Fehler beim Aufruf von " + Main.class);
        printHelp(options);
        System.exit(1);
    }
}

From source file:cc.twittertools.search.api.RunQueriesBaselineThrift.java

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

    options.addOption(OptionBuilder.withArgName("string").hasArg().withDescription("host").create(HOST_OPTION));
    options.addOption(OptionBuilder.withArgName("port").hasArg().withDescription("port").create(PORT_OPTION));
    options.addOption(OptionBuilder.withArgName("file").hasArg()
            .withDescription("file containing topics in TREC format").create(QUERIES_OPTION));
    options.addOption(OptionBuilder.withArgName("num").hasArg().withDescription("number of results to return")
            .create(NUM_RESULTS_OPTION));
    options.addOption(//from   ww  w .j av  a2 s. c o m
            OptionBuilder.withArgName("string").hasArg().withDescription("group id").create(GROUP_OPTION));
    options.addOption(
            OptionBuilder.withArgName("string").hasArg().withDescription("access token").create(TOKEN_OPTION));
    options.addOption(
            OptionBuilder.withArgName("string").hasArg().withDescription("runtag").create(RUNTAG_OPTION));
    options.addOption(new Option(VERBOSE_OPTION, "print out complete document"));

    CommandLine cmdline = null;
    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(HOST_OPTION) || !cmdline.hasOption(PORT_OPTION)
            || !cmdline.hasOption(QUERIES_OPTION)) {
        HelpFormatter formatter = new HelpFormatter();
        formatter.printHelp(RunQueriesThrift.class.getName(), options);
        System.exit(-1);
    }

    String queryFile = cmdline.getOptionValue(QUERIES_OPTION);
    if (!new File(queryFile).exists()) {
        System.err.println("Error: " + queryFile + " doesn't exist!");
        System.exit(-1);
    }

    String runtag = cmdline.hasOption(RUNTAG_OPTION) ? cmdline.getOptionValue(RUNTAG_OPTION) : DEFAULT_RUNTAG;

    TrecTopicSet topicsFile = TrecTopicSet.fromFile(new File(queryFile));

    int numResults = 1000;
    try {
        if (cmdline.hasOption(NUM_RESULTS_OPTION)) {
            numResults = Integer.parseInt(cmdline.getOptionValue(NUM_RESULTS_OPTION));
        }
    } catch (NumberFormatException e) {
        System.err.println("Invalid " + NUM_RESULTS_OPTION + ": " + cmdline.getOptionValue(NUM_RESULTS_OPTION));
        System.exit(-1);
    }

    String group = cmdline.hasOption(GROUP_OPTION) ? cmdline.getOptionValue(GROUP_OPTION) : null;
    String token = cmdline.hasOption(TOKEN_OPTION) ? cmdline.getOptionValue(TOKEN_OPTION) : null;

    boolean verbose = cmdline.hasOption(VERBOSE_OPTION);

    PrintStream out = new PrintStream(System.out, true, "UTF-8");

    TrecSearchThriftClient client = new TrecSearchThriftClient(cmdline.getOptionValue(HOST_OPTION),
            Integer.parseInt(cmdline.getOptionValue(PORT_OPTION)), group, token);

    for (cc.twittertools.search.TrecTopic query : topicsFile) {
        List<TResult> results = client.search(query.getQuery(), query.getQueryTweetTime(), numResults);

        SortedSet<TResultComparable> sortedResults = new TreeSet<TResultComparable>();
        for (TResult result : results) {
            // Throw away retweets.
            if (result.getRetweeted_status_id() == 0) {
                sortedResults.add(new TResultComparable(result));
            }
        }

        int i = 1;
        int dupliCount = 0;
        double rsvPrev = 0;
        for (TResultComparable sortedResult : sortedResults) {
            TResult result = sortedResult.getTResult();
            double rsvCurr = result.rsv;
            if (Math.abs(rsvCurr - rsvPrev) > 0.0000001) {
                dupliCount = 0;
            } else {
                dupliCount++;
                rsvCurr = rsvCurr - 0.000001 / numResults * dupliCount;
            }
            out.println(String.format("%s Q0 %d %d %." + (int) (6 + Math.ceil(Math.log10(numResults))) + "f %s",
                    query.getId(), result.id, i, rsvCurr, runtag));
            if (verbose) {
                out.println("# " + result.toString().replaceAll("[\\n\\r]+", " "));
            }
            i++;
            rsvPrev = result.rsv;
        }

    }
    out.close();
}

From source file:com.cloudera.recordbreaker.learnstructure.test.GenerateRandomData.java

/**
 *//*from w w  w.j av a 2  s  . c  o m*/
public static void main(String argv[]) throws IOException {
    CommandLine cmd = null;
    Options options = new Options();
    options.addOption("?", false, "Help for command-line");
    options.addOption("n", true, "Number elts to emit");

    try {
        CommandLineParser parser = new PosixParser();
        cmd = parser.parse(options, argv);
    } catch (ParseException pe) {
        HelpFormatter fmt = new HelpFormatter();
        fmt.printHelp("GenerateRandomData", options, true);
        System.exit(-1);
    }

    if (cmd.hasOption("?")) {
        HelpFormatter fmt = new HelpFormatter();
        fmt.printHelp("GenerateRandomData", options, true);
        System.exit(0);
    }

    int numToEmit = 100;
    if (cmd.hasOption("n")) {
        try {
            numToEmit = Integer.parseInt(cmd.getOptionValue("n"));
        } catch (NumberFormatException nfe) {
            nfe.printStackTrace();
        }
    }

    String[] argArray = cmd.getArgs();
    if (argArray.length == 0) {
        HelpFormatter fmt = new HelpFormatter();
        fmt.printHelp("GenerateRandomData", options, true);
        System.exit(0);
    }
    File inputSchemaFile = new File(argArray[0]).getCanonicalFile();
    File outputDataFile = new File(argArray[1]).getCanonicalFile();
    if (outputDataFile.exists()) {
        System.err.println("Output file already exists: " + outputDataFile.getCanonicalPath());
        System.exit(0);
    }

    GenerateRandomData grd = new GenerateRandomData();
    Schema schema = Schema.parse(inputSchemaFile);

    GenericDatumWriter datum = new GenericDatumWriter(schema);
    DataFileWriter out = new DataFileWriter(datum);
    out.create(schema, outputDataFile);
    try {
        for (int i = 0; i < numToEmit; i++) {
            out.append((GenericData.Record) grd.generateData(schema));
        }
    } finally {
        out.close();
    }
}