fr.ens.biologie.genomique.eoulsan.MainCLI.java Source code

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Here is the source code for fr.ens.biologie.genomique.eoulsan.MainCLI.java

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/*
 *                  Eoulsan development code
 *
 * This code may be freely distributed and modified under the
 * terms of the GNU Lesser General Public License version 2.1 or
 * later and CeCILL-C. This should be distributed with the code.
 * If you do not have a copy, see:
 *
 *      http://www.gnu.org/licenses/lgpl-2.1.txt
 *      http://www.cecill.info/licences/Licence_CeCILL-C_V1-en.txt
 *
 * Copyright for this code is held jointly by the Genomic platform
 * of the Institut de Biologie de l'cole normale suprieure and
 * the individual authors. These should be listed in @author doc
 * comments.
 *
 * For more information on the Eoulsan project and its aims,
 * or to join the Eoulsan Google group, visit the home page
 * at:
 *
 *      http://outils.genomique.biologie.ens.fr/eoulsan
 *
 */

package fr.ens.biologie.genomique.eoulsan;

import java.io.File;
import java.io.IOException;
import java.net.URI;
import java.util.logging.FileHandler;
import java.util.logging.Handler;

import org.apache.commons.cli.OptionBuilder;
import org.apache.commons.cli.Options;

/**
 * Main class in local mode.
 * @since 1.0
 * @author Laurent Jourdren
 */
public final class MainCLI extends Main {

    private static final String LAUNCH_MODE_NAME = "local";

    /**
     * Create options for command line
     * @return an Options object
     */
    @Override
    @SuppressWarnings("static-access")
    protected Options makeOptions() {

        // create Options object
        final Options options = super.makeOptions();

        // eoulsan.sh shell script options
        options.addOption(OptionBuilder.withArgName("path").hasArg().withDescription("JAVA_HOME path").create('j'));

        options.addOption(OptionBuilder.withArgName("size").hasArg()
                .withDescription("maximal memory usage for JVM in MB (2048 by default)").create('m'));

        options.addOption(OptionBuilder.withArgName("args").hasArg()
                .withDescription("JVM arguments (-server by default)").create('J'));

        options.addOption(
                OptionBuilder.withArgName("path").hasArg().withDescription("JVM working directory").create('w'));

        options.addOption(OptionBuilder.withArgName("classpath").hasArg()
                .withDescription("additional classpath for eoulsan plugins").create('p'));

        return options;
    }

    @Override
    protected void initializeRuntime(final Settings settings) {

        LocalEoulsanRuntime.newEoulsanRuntime(settings);
    }

    @Override
    protected String getHelpEoulsanCommand() {

        return Globals.APP_NAME_LOWER_CASE;
    }

    @Override
    protected Handler getLogHandler(final URI logFile) throws IOException {

        if (logFile == null) {
            throw new NullPointerException("The log file is null");
        }

        final File file = new File(logFile);
        final File parentFile = file.getParentFile();

        // Create parent directory if necessary
        if (parentFile != null && !parentFile.exists()) {
            if (!parentFile.mkdirs()) {
                throw new IOException("Unable to create directory " + parentFile + " for log file:" + logFile);
            }
        }

        return new FileHandler(file.getAbsolutePath());
    }

    //
    // Constructor
    //

    /**
     * Constructor.
     * @param args command line arguments
     */
    protected MainCLI(final String[] args) {

        super(LAUNCH_MODE_NAME, args);
    }

}