Data.java example

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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'École normale supérieure 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.data;

import java.util.List;

/**
 * This interface define data used by ports.
 * @since 2.0
 * @author Laurent Jourdren
 */
public interface Data {

  /**
   * Get data name.
   * @return the name of the data
   */
  String getName();

  /**
   * Get the data format of the data.
   * @return a DataFormat object
   */
  DataFormat getFormat();

  /**
   * Get the part of the data.
   * @return the part of the data or -1 if data has not been split
   */
  int getPart();

  /**
   * Get metadata about the data.
   * @return a map with the metadata entries
   */
  DataMetadata getMetadata();

  //
  // List methods
  //

  /**
   * Test if the data is a list.
   * @return true if the data is a list
   */
  boolean isList();

  /**
   * Get the the list of data.
   * @return a list even if the data is not a list
   */
  List<Data> getListElements();

  /**
   * Get the size of the data.
   * @return the number of the element of the data
   */
  int size();

  /**
   * Test if the number of the elements of the data is equals to 0.
   * @return true f the number of the elements of the data is equals to 0
   */
  boolean isEmpty();

  /**
   * Add a data to the list of data.
   * @param name name of the data
   * @return the data object added to the list
   */
  Data addDataToList(String name);

  /**
   * Add a data to the list of data.
   * @param name name of the data
   * @param part split part number (-1 for no part)
   * @return the data object added to the list
   */
  Data addDataToList(String name, int part);

  //
  // Files methods
  //

  /**
   * Get the pathname for the data.
   * @return a String with the pathname
   */
  String getDataFilename();

  /**
   * Get the pathname for the data. This method works only for a multi-file
   * DataFormat.
   * @param fileIndex file index for multi-file data
   * @return a String with the pathname
   * @throws fr.ens.biologie.genomique.eoulsan.EoulsanRuntimeException if the
   *           DataFormat is not multi-file
   */
  String getDataFilename(int fileIndex);

  /**
   * Get the DataFile for an input DataType and a Sample.
   * @return a new DataFile object
   */
  DataFile getDataFile();

  /**
   * Get the DataFile for an input DataType and a Sample. This method works only
   * for a multi-file DataFormat.
   * @param fileIndex file index for multi-file data
   * @return a new DataFile object
   * @throws fr.ens.biologie.genomique.eoulsan.EoulsanRuntimeException if the
   *           DataFormat is not multi-file
   */
  DataFile getDataFile(int fileIndex);

  /**
   * Count the number for DataFile available for a multi-file DataFormat and a
   * Sample. This method works only for a multi-file DataFormat.
   * @return the number of multi-file for the DataFormat and the sample
   * @throws fr.ens.biologie.genomique.eoulsan.EoulsanRuntimeException if the
   *           DataFormat is not multi-file
   */
  int getDataFileCount();

  /**
   * Count the number for DataFile available for a multi-file DataFormat and a
   * Sample. This method works only for a multi-file DataFormat.
   * @param existingFiles if true return the number of files that really exists
   * @return the number of multi-file for the DataFormat and the sample
   * @throws fr.ens.biologie.genomique.eoulsan.EoulsanRuntimeException if the
   *           DataFormat is not multi-file
   */
  int getDataFileCount(boolean existingFiles);

}