import java.net.URL;
import java.security.ProtectionDomain;

import org.apache.commons.cli.BasicParser;
import org.apache.commons.cli.CommandLine;
import org.apache.commons.cli.CommandLineParser;
import org.apache.commons.cli.HelpFormatter;
import org.apache.commons.cli.OptionBuilder;
import org.apache.commons.cli.Options;

import org.mortbay.jetty.Server;
import org.mortbay.jetty.webapp.WebAppContext;

import javax.servlet.ServletContext;

public class DocumentValidatorRunner {

  public static void main(String[] args) throws Exception {
    Options options = new Options();
    options.addOption("h", "help", false, "help");

    OptionBuilder.withLongOpt("port");
    OptionBuilder.withDescription("port number");
    OptionBuilder.hasArg();
    OptionBuilder.withArgName("PORT");
    options.addOption(OptionBuilder.create("p"));

    OptionBuilder.withLongOpt("conf");
    OptionBuilder.withDescription("configuration file");
    OptionBuilder.hasArg();
    options.addOption(OptionBuilder.create("c"));


    options.addOption("v", "version", false,
        "print the version information and exit");

    CommandLineParser parser = new BasicParser();
    CommandLine commandLine = null;

    try {
      commandLine = parser.parse(options, args);
    } catch (Exception e) {
      printHelp(options);
      System.exit(-1);
    }

    String configFileName = "/conf/dv-conf.xml";
    int portNum = 8080;

    if (commandLine.hasOption("h")) {
      printHelp(options);
      System.exit(0);
    }
    if (commandLine.hasOption("v")) {
      System.out.println("1.0");
      System.exit(0);
    }
    if (commandLine.hasOption("c")) {
      configFileName = commandLine.getOptionValue("c");
    }

    if (commandLine.hasOption("p")) {
      portNum = Integer.parseInt(commandLine.getOptionValue("p"));
    }

    final String contextPath = System.getProperty("redpen.home","/");

    Server server = new Server(portNum);
    ProtectionDomain domain = DocumentValidatorRunner.class.getProtectionDomain();
    URL location = domain.getCodeSource().getLocation();

    WebAppContext webapp = new WebAppContext();
    webapp.setContextPath(contextPath);
    webapp.setWar(location.toExternalForm());
    ServletContext context = webapp.getServletContext();
    context.setAttribute("redpen.conf.path", configFileName);
    server.setHandler(webapp);
    server.start();
    server.join();
  }

  private static void printHelp(Options opt) {
    HelpFormatter formatter = new HelpFormatter();
    formatter.printHelp("ParseArgs", opt);
  }
}

import java.net.URL;
import java.security.ProtectionDomain;

import org.apache.commons.cli.BasicParser;
import org.apache.commons.cli.CommandLine;
import org.apache.commons.cli.CommandLineParser;
import org.apache.commons.cli.HelpFormatter;
import org.apache.commons.cli.OptionBuilder;
import org.apache.commons.cli.Options;

import org.mortbay.jetty.Server;
import org.mortbay.jetty.webapp.WebAppContext;

import javax.servlet.ServletContext;

public class DocumentValidatorRunner {

  public static void main(String[] args) throws Exception {
    Options options = new Options();
    options.addOption("h", "help", false, "help");

    OptionBuilder.withLongOpt("port");
    OptionBuilder.withDescription("port number");
    OptionBuilder.hasArg();
    OptionBuilder.withArgName("PORT");
    options.addOption(OptionBuilder.create("p"));

    OptionBuilder.withLongOpt("conf");
    OptionBuilder.withDescription("configuration file");
    OptionBuilder.hasArg();
    OptionBuilder.withArgName("CONFFILE");
    options.addOption(OptionBuilder.create("c"));


    options.addOption("v", "version", false,
        "print the version information and exit");

    CommandLineParser parser = new BasicParser();
    CommandLine commandLine = null;

    try {
      commandLine = parser.parse(options, args);
    } catch (Exception e) {
      printHelp(options);
      System.exit(-1);
    }

    String configFileName = "/conf/dv-conf.xml";
    int portNum = 8080;

    if (commandLine.hasOption("h")) {
      printHelp(options);
      System.exit(0);
    }
    if (commandLine.hasOption("v")) {
      System.out.println("1.0");
      System.exit(0);
    }
    if (commandLine.hasOption("c")) {
      configFileName = commandLine.getOptionValue("c");
    }

    if (commandLine.hasOption("p")) {
      portNum = Integer.parseInt(commandLine.getOptionValue("p"));
    }

    final String contextPath = System.getProperty("redpen.home","/");

    Server server = new Server(portNum);
    ProtectionDomain domain = DocumentValidatorRunner.class.getProtectionDomain();
    URL location = domain.getCodeSource().getLocation();

    WebAppContext webapp = new WebAppContext();
    webapp.setContextPath(contextPath);
    webapp.setWar(location.toExternalForm());
    ServletContext context = webapp.getServletContext();
    context.setAttribute("redpen.conf.path", configFileName);
    server.setHandler(webapp);
    server.start();
    server.join();
  }

  private static void printHelp(Options opt) {
    HelpFormatter formatter = new HelpFormatter();
    formatter.printHelp("redpen-server", opt);
  }
}

Fix command and argument names