Example usage for org.apache.commons.cli DefaultParser DefaultParser

List of usage examples for org.apache.commons.cli DefaultParser DefaultParser

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

Prototype

DefaultParser

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Usage

From source file:UploadUrlGenerator.java

public static void main(String[] args) throws Exception {
    Options opts = new Options();

    opts.addOption(Option.builder().longOpt(ENDPOINT_OPTION).required().hasArg().argName("url")
            .desc("Sets the ECS S3 endpoint to use, e.g. https://ecs.company.com:9021").build());
    opts.addOption(Option.builder().longOpt(ACCESS_KEY_OPTION).required().hasArg().argName("access-key")
            .desc("Sets the Access Key (user) to sign the request").build());
    opts.addOption(Option.builder().longOpt(SECRET_KEY_OPTION).required().hasArg().argName("secret")
            .desc("Sets the secret key to sign the request").build());
    opts.addOption(Option.builder().longOpt(BUCKET_OPTION).required().hasArg().argName("bucket-name")
            .desc("The bucket containing the object").build());
    opts.addOption(Option.builder().longOpt(KEY_OPTION).required().hasArg().argName("object-key")
            .desc("The object name (key) to access with the URL").build());
    opts.addOption(Option.builder().longOpt(EXPIRES_OPTION).hasArg().argName("minutes")
            .desc("Minutes from local time to expire the request.  1 day = 1440, 1 week=10080, "
                    + "1 month (30 days)=43200, 1 year=525600.  Defaults to 1 hour (60).")
            .build());//from w  w w.  java2  s  . c o m
    opts.addOption(Option.builder().longOpt(VERB_OPTION).hasArg().argName("http-verb").type(HttpMethod.class)
            .desc("The HTTP verb that will be used with the URL (PUT, GET, etc).  Defaults to GET.").build());
    opts.addOption(Option.builder().longOpt(CONTENT_TYPE_OPTION).hasArg().argName("mimetype")
            .desc("Sets the Content-Type header (e.g. image/jpeg) that will be used with the request.  "
                    + "Must match exactly.  Defaults to application/octet-stream for PUT/POST and "
                    + "null for all others")
            .build());

    DefaultParser dp = new DefaultParser();

    CommandLine cmd = null;
    try {
        cmd = dp.parse(opts, args);
    } catch (ParseException e) {
        System.err.println("Error: " + e.getMessage());
        HelpFormatter hf = new HelpFormatter();
        hf.printHelp("java -jar UploadUrlGenerator-xxx.jar", opts, true);
        System.exit(255);
    }

    URI endpoint = URI.create(cmd.getOptionValue(ENDPOINT_OPTION));
    String accessKey = cmd.getOptionValue(ACCESS_KEY_OPTION);
    String secretKey = cmd.getOptionValue(SECRET_KEY_OPTION);
    String bucket = cmd.getOptionValue(BUCKET_OPTION);
    String key = cmd.getOptionValue(KEY_OPTION);
    HttpMethod method = HttpMethod.GET;
    if (cmd.hasOption(VERB_OPTION)) {
        method = HttpMethod.valueOf(cmd.getOptionValue(VERB_OPTION).toUpperCase());
    }
    int expiresMinutes = 60;
    if (cmd.hasOption(EXPIRES_OPTION)) {
        expiresMinutes = Integer.parseInt(cmd.getOptionValue(EXPIRES_OPTION));
    }
    String contentType = null;
    if (method == HttpMethod.PUT || method == HttpMethod.POST) {
        contentType = "application/octet-stream";
    }

    if (cmd.hasOption(CONTENT_TYPE_OPTION)) {
        contentType = cmd.getOptionValue(CONTENT_TYPE_OPTION);
    }

    BasicAWSCredentials credentials = new BasicAWSCredentials(accessKey, secretKey);
    ClientConfiguration cc = new ClientConfiguration();
    // Force use of v2 Signer.  ECS does not support v4 signatures yet.
    cc.setSignerOverride("S3SignerType");
    AmazonS3Client s3 = new AmazonS3Client(credentials, cc);
    s3.setEndpoint(endpoint.toString());
    S3ClientOptions s3c = new S3ClientOptions();
    s3c.setPathStyleAccess(true);
    s3.setS3ClientOptions(s3c);

    // Sign the URL
    Calendar c = Calendar.getInstance();
    c.add(Calendar.MINUTE, expiresMinutes);
    GeneratePresignedUrlRequest req = new GeneratePresignedUrlRequest(bucket, key).withExpiration(c.getTime())
            .withMethod(method);
    if (contentType != null) {
        req = req.withContentType(contentType);
    }
    URL u = s3.generatePresignedUrl(req);
    System.out.printf("URL: %s\n", u.toURI().toASCIIString());
    System.out.printf("HTTP Verb: %s\n", method);
    System.out.printf("Expires: %s\n", c.getTime());
    System.out.println("To Upload with curl:");

    StringBuilder sb = new StringBuilder();
    sb.append("curl ");

    if (method != HttpMethod.GET) {
        sb.append("-X ");
        sb.append(method.toString());
        sb.append(" ");
    }

    if (contentType != null) {
        sb.append("-H \"Content-Type: ");
        sb.append(contentType);
        sb.append("\" ");
    }

    if (method == HttpMethod.POST || method == HttpMethod.PUT) {
        sb.append("-T <filename> ");
    }

    sb.append("\"");
    sb.append(u.toURI().toASCIIString());
    sb.append("\"");

    System.out.println(sb.toString());

    System.exit(0);
}

From source file:de.tudarmstadt.ukp.dkpro.argumentation.io.XmiFilePatternJsonStreamDumper.java

public static void main(final String[] args) throws ParseException, UIMAException, IOException {
    // TODO: It would be nice to be able to read from standard input but it
    // seems that ResourceCollectionReaderBase doesn't facilitate this
    final CommandLineParser parser = new DefaultParser();
    final Options opts = Parameter.createOptions();
    try {/*  w ww  .j  a  v a 2  s. com*/
        final CommandLine commandLine = parser.parse(opts, args);
        final String sourceLocation = commandLine.getOptionValue(Parameter.SOURCE_LOCATION.paramName);
        LOG.info(String.format("Source location is \"%s\".", sourceLocation));
        final String targetLocation = commandLine.getOptionValue(Parameter.TARGET_LOCATION.paramName);
        LOG.info(String.format("Target location is \"%s\".", targetLocation));
        new XmiFilePatternJsonStreamDumper(JsonStreamDumpWriter.class, sourceLocation, targetLocation).call();
    } catch (final ParseException e) {
        printHelp(opts);
        throw e;
    }
}

From source file:net.librec.tool.driver.DataDriver.java

public static void main(String[] args) throws Exception {
    LibrecTool tool = new DataDriver();

    Options options = new Options();
    options.addOption("build", false, "build model");
    options.addOption("load", false, "load model");
    options.addOption("save", false, "save model");
    options.addOption("conf", true, "the path of configuration file");
    options.addOption("jobconf", true, "a specified key-value pair for configuration");
    options.addOption("D", true, "a specified key-value pair for configuration");

    CommandLineParser parser = new DefaultParser();
    CommandLine cmd = parser.parse(options, args);

    if (cmd.hasOption("build")) {
        tool.run(args);/*from w  ww .  ja  va2  s  .c om*/
    } else if (cmd.hasOption("load")) {
        ;
    } else if (cmd.hasOption("save")) {
        ;
    }
}

From source file:com.act.biointerpretation.mechanisminspection.ReactionValidator.java

public static void main(String[] args) throws Exception {
    Options opts = new Options();
    for (Option.Builder b : OPTION_BUILDERS) {
        opts.addOption(b.build());/*www .j a  va 2 s  .  c  o  m*/
    }

    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(LoadPlateCompositionIntoDB.class.getCanonicalName(), HELP_MESSAGE, opts, null,
                true);
        System.exit(1);
    }

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

    NoSQLAPI api = new NoSQLAPI(cl.getOptionValue(OPTION_READ_DB), cl.getOptionValue(OPTION_READ_DB));
    MechanisticValidator validator = new MechanisticValidator(api);
    validator.init();

    Map<Integer, List<Ero>> results = validator
            .validateOneReaction(Long.parseLong(cl.getOptionValue(OPTION_RXN_ID)));

    if (results == null) {
        System.out.format("ERROR: validation results are null.\n");
    } else if (results.size() == 0) {
        System.out.format("No matching EROs were found for the specified reaction.\n");
    } else {
        for (Map.Entry<Integer, List<Ero>> entry : results.entrySet()) {
            List<String> eroIds = entry.getValue().stream().map(x -> x.getId().toString())
                    .collect(Collectors.toList());
            System.out.format("%d: %s\n", entry.getKey(), StringUtils.join(eroIds, ", "));
        }
    }
}

From source file:com.yahoo.gondola.tsunami.Tsunami.java

public static void main(String[] args) throws Exception {
    PropertyConfigurator.configure("conf/log4j.properties");
    config = new Config(new File("conf/gondola-tsunami.conf"));

    // Process command line arguments
    CommandLineParser parser = new DefaultParser();
    Options options = new Options();
    options.addOption("w", true, "Number of writers per member, default = " + numWriters);
    options.addOption("h", false, "help");
    CommandLine commandLine = parser.parse(options, args);
    if (commandLine.hasOption("h")) {
        new HelpFormatter().printHelp("Tsunami Test", options);
        return;//ww  w .  j  av  a 2s .  co  m
    }
    if (commandLine.hasOption("w")) {
        numWriters = Integer.parseInt(commandLine.getOptionValue("w"));
    }
    new Tsunami();
}

From source file:com.act.biointerpretation.l2expansion.L2PredictionCorpusOperations.java

public static void main(String[] args) throws IOException {
    Options opts = new Options();
    for (Option.Builder b : OPTION_BUILDERS) {
        opts.addOption(b.build());/*w  w  w  .  j a  va  2 s. co m*/
    }

    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(L2PredictionCorpusOperations.class.getCanonicalName(), HELP_MESSAGE, opts,
                null, true);
        System.exit(1);
    }

    if (cl.hasOption("help")) {
        HELP_FORMATTER.printHelp(L2PredictionCorpusOperations.class.getCanonicalName(), HELP_MESSAGE, opts,
                null, true);
        System.exit(1);
    }

    if (cl.hasOption(OPTION_WRITE_PRODUCTS_AS_LIST_OF_INCHIS)) {
        L2PredictionCorpus corpus = L2PredictionCorpus.readPredictionsFromJsonFile(
                new File(cl.getOptionValue(OPTION_WRITE_PRODUCTS_AS_LIST_OF_INCHIS)));
        corpus.writePredictionsAsInchiList(
                new File(cl.getOptionValue(OPTION_WRITE_PRODUCTS_AS_LIST_OF_INCHIS)));
    }
}

From source file:net.librec.tool.driver.RecDriver.java

public static void main(String[] args) throws Exception {
    LibrecTool tool = new RecDriver();

    Options options = new Options();
    options.addOption("build", false, "build model");
    options.addOption("load", false, "load model");
    options.addOption("save", false, "save model");
    options.addOption("exec", false, "run job");
    options.addOption("conf", true, "the path of configuration file");
    options.addOption("jobconf", true, "a specified key-value pair for configuration");
    options.addOption("D", true, "a specified key-value pair for configuration");

    CommandLineParser parser = new DefaultParser();
    CommandLine cmd = parser.parse(options, args);

    if (cmd.hasOption("build")) {
        ;/*from   w  ww .ja  va  2  s .  c  o m*/
    } else if (cmd.hasOption("load")) {
        ;
    } else if (cmd.hasOption("save")) {
        ;
    } else if (cmd.hasOption("exec")) {
        tool.run(args);
    }
}

From source file:Inmemantlr.java

public static void main(String[] args) {
    LOGGER.info("Inmemantlr tool");

    HelpFormatter hformatter = new HelpFormatter();

    Options options = new Options();

    // Binary arguments
    options.addOption("h", "print this message");

    Option grmr = Option.builder().longOpt("grmrfiles").hasArgs().desc("comma-separated list of ANTLR files")
            .required(true).argName("grmrfiles").type(String.class).valueSeparator(',').build();

    Option infiles = Option.builder().longOpt("infiles").hasArgs()
            .desc("comma-separated list of files to parse").required(true).argName("infiles").type(String.class)
            .valueSeparator(',').build();

    Option utilfiles = Option.builder().longOpt("utilfiles").hasArgs()
            .desc("comma-separated list of utility files to be added for " + "compilation").required(false)
            .argName("utilfiles").type(String.class).valueSeparator(',').build();

    Option odir = Option.builder().longOpt("outdir")
            .desc("output directory in which the dot files will be " + "created").required(false).hasArg(true)
            .argName("outdir").type(String.class).build();

    options.addOption(infiles);/*from  w  w  w.  java2 s .  c o m*/
    options.addOption(grmr);
    options.addOption(utilfiles);
    options.addOption(odir);

    CommandLineParser parser = new DefaultParser();

    CommandLine cmd = null;

    try {
        cmd = parser.parse(options, args);
        if (cmd.hasOption('h')) {
            hformatter.printHelp("java -jar inmemantlr.jar", options);
            System.exit(0);
        }
    } catch (ParseException e) {
        hformatter.printHelp("java -jar inmemantlr.jar", options);
        LOGGER.error(e.getMessage());
        System.exit(-1);
    }

    // input files
    Set<File> ins = getFilesForOption(cmd, "infiles");
    // grammar files
    Set<File> gs = getFilesForOption(cmd, "grmrfiles");
    // utility files
    Set<File> uf = getFilesForOption(cmd, "utilfiles");
    // output dir
    Set<File> od = getFilesForOption(cmd, "outdir");

    if (od.size() > 1) {
        LOGGER.error("output directories must be less than or equal to 1");
        System.exit(-1);
    }

    if (ins.size() <= 0) {
        LOGGER.error("no input files were specified");
        System.exit(-1);
    }

    if (gs.size() <= 0) {
        LOGGER.error("no grammar files were specified");
        System.exit(-1);
    }

    LOGGER.info("create generic parser");
    GenericParser gp = null;
    try {
        gp = new GenericParser(gs.toArray(new File[gs.size()]));
    } catch (FileNotFoundException e) {
        LOGGER.error(e.getMessage());
        System.exit(-1);
    }

    if (!uf.isEmpty()) {
        try {
            gp.addUtilityJavaFiles(uf.toArray(new String[uf.size()]));
        } catch (FileNotFoundException e) {
            LOGGER.error(e.getMessage());
            System.exit(-1);
        }
    }

    LOGGER.info("create and add parse tree listener");
    DefaultTreeListener dt = new DefaultTreeListener();
    gp.setListener(dt);

    LOGGER.info("compile generic parser");
    try {
        gp.compile();
    } catch (CompilationException e) {
        LOGGER.error("cannot compile generic parser: {}", e.getMessage());
        System.exit(-1);
    }

    String fpfx = "";
    for (File of : od) {
        if (!of.exists() || !of.isDirectory()) {
            LOGGER.error("output directory does not exist or is not a " + "directory");
            System.exit(-1);
        }
        fpfx = of.getAbsolutePath();
    }

    Ast ast;
    for (File f : ins) {
        try {
            gp.parse(f);
        } catch (IllegalWorkflowException | FileNotFoundException e) {
            LOGGER.error(e.getMessage());
            System.exit(-1);
        }
        ast = dt.getAst();

        if (!fpfx.isEmpty()) {
            String of = fpfx + "/" + FilenameUtils.removeExtension(f.getName()) + ".dot";

            LOGGER.info("write file {}", of);

            try {
                FileUtils.writeStringToFile(new File(of), ast.toDot(), "UTF-8");
            } catch (IOException e) {
                LOGGER.error(e.getMessage());
                System.exit(-1);
            }
        } else {
            LOGGER.info("Tree for {} \n {}", f.getName(), ast.toDot());
        }
    }

    System.exit(0);
}

From source file:com.act.biointerpretation.cofactorremoval.ReactionCofactorRemover.java

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

    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(LoadPlateCompositionIntoDB.class.getCanonicalName(), HELP_MESSAGE, opts, null,
                true);
        System.exit(1);
    }

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

    NoSQLAPI api = new NoSQLAPI(cl.getOptionValue(OPTION_READ_DB), cl.getOptionValue(OPTION_READ_DB));

    CofactorRemover cofactorRemover = new CofactorRemover(api);
    cofactorRemover.init();

    Pair<Reaction, Reaction> results = cofactorRemover
            .removeCofactorsFromOneReaction(Long.parseLong(cl.getOptionValue(OPTION_RXN_ID)));

    System.out.format("Reaction before processing:\n");
    printReport(results.getLeft());
    System.out.println();
    System.out.format("Reaction after processing:\n");
    printReport(results.getRight());
    System.out.println();
}

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

public static void main(String[] args) {
    Options options = new Options();

    StringBuilder commandList = new StringBuilder();
    for (DeviceCommand cmd : DeviceCommand.values()) {
        if (commandList.length() > 0) {
            commandList.append(", ");
        }/*from w w w  .  j av a 2s .c  om*/
        commandList.append(cmd.toString());
    }

    options.addOption(Option //
            .builder() //
            .longOpt("base-url") //
            .desc("Sets the base URL of the web service") //
            .hasArg() //
            .build());
    options.addOption(Option //
            .builder("u") //
            .longOpt("username") //
            .desc("The username for authentication (usually mail address)") //
            .required() //
            .hasArg() //
            .build());
    options.addOption(Option //
            .builder("p") //
            .longOpt("password") //
            .desc("The password for authentication") //
            .required() //
            .hasArg() //
            .build());
    options.addOption(Option //
            .builder("c") //
            .longOpt("command") //
            .desc(String.format("The command, which should be sent to the device (%s)", commandList)) //
            .hasArg() //
            .build());
    options.addOption(Option //
            .builder("q") //
            .longOpt("query-status") //
            .desc("Queries the status of the device") //
            .build());
    options.addOption(Option //
            .builder() //
            .longOpt("query-calendar") //
            .desc("Queries the calendar of the device") //
            .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(CmdLineTool.class.getName(), options);
        System.exit(1);
        return;
    }

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

    String baseUrl = cmds.getOptionValue("base-url");
    String username = cmds.getOptionValue('u');
    String password = cmds.getOptionValue('p');
    String commandStr = cmds.getOptionValue('c');
    boolean doQueryState = cmds.hasOption('q');
    boolean doQueryCalendar = cmds.hasOption("query-calendar");

    DeviceCommand command = null;
    if (commandStr != null) {
        try {
            command = DeviceCommand.valueOf(commandStr.toUpperCase());
        } catch (IllegalArgumentException ex) {
            System.err.println("Unknown command: " + commandStr);
            System.exit(1);
        }
    }

    IndegoController controller = new IndegoController(baseUrl, username, password);
    try {
        System.out.println("Connecting to device");
        controller.connect();
        System.out.println(String.format("...Connection established. Device serial number is: %s",
                controller.getDeviceSerialNumber()));
        if (command != null) {
            System.out.println(String.format("Sending command (%s)...", command));
            controller.sendCommand(command);
            System.out.println("...Command sent successfully!");
        }
        if (doQueryState) {
            System.out.println("Querying device state");
            DeviceStateInformation state = controller.getState();
            printState(System.out, state);
        }
        if (doQueryCalendar) {
            System.out.println("Querying device calendar");
            DeviceCalendar calendar = controller.getCalendar();
            printCalendar(System.out, calendar);
        }
    } catch (IndegoException ex) {
        ex.printStackTrace();
        System.exit(2);
    } finally {
        controller.disconnect();
    }
}