/* * 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.core.workflow; import static com.google.common.base.Preconditions.checkNotNull; import java.io.Serializable; import java.util.ArrayList; import java.util.Collections; import java.util.List; import com.google.common.base.Objects; import com.google.common.base.Preconditions; import fr.ens.biologie.genomique.eoulsan.data.Data; import fr.ens.biologie.genomique.eoulsan.data.DataFile; import fr.ens.biologie.genomique.eoulsan.data.DataMetadata; import fr.ens.biologie.genomique.eoulsan.design.Design; /** * This class define a data list. * @since 2.0 * @author Laurent Jourdren */ public class DataList extends AbstractData implements Serializable { private static final long serialVersionUID = -2933515018143805029L; private final List<Data> list = new ArrayList<>(); // Required by the metadata private final Design design; // Field required for multi-files Data creation private final StepOutputPort port; @Override public Data addDataToList(final String name) { return addDataToList(name, -1); } @Override public Data addDataToList(final String name, final int part) { Preconditions.checkNotNull(name, "name argument cannot be null"); if (this.port == null) { throw new UnsupportedOperationException(); } final AbstractData result = new DataElement(this.port, this.design); result.setName(name); result.setPart(part); this.list.add(result); return result; } @Override public int getPart() { return -1; } @Override public boolean isList() { return true; } @Override public List<Data> getListElements() { return Collections.unmodifiableList(this.list); } /** * Get the modifiable list of data object. * @return a list object */ List<Data> getModifiableList() { return this.list; } @Override public DataMetadata getMetadata() { return new UnmodifiableDataMetadata(new SimpleDataMetadata(this.design)); } @Override public String getDataFilename() { throw new UnsupportedOperationException(); } @Override public String getDataFilename(final int fileIndex) { throw new UnsupportedOperationException(); } @Override public DataFile getDataFile() { throw new UnsupportedOperationException(); } @Override public DataFile getDataFile(final int fileIndex) { throw new UnsupportedOperationException(); } @Override public int getDataFileCount() { throw new UnsupportedOperationException(); } @Override public int getDataFileCount(final boolean existingFiles) { throw new UnsupportedOperationException(); } @Override public String toString() { return Objects.toStringHelper(this).add("name", getName()) .add("format", getFormat().getName()).add("metadata", getMetadata()) .add("list", isList()).add("elements", this.list).toString(); } // // Constructors // /** * Constructor. * @param port input port * @param design design */ DataList(final StepInputPort port, final Design design) { super(port.getFormat()); checkNotNull(design, "design argument cannot be null"); this.port = null; this.design = design; } /** * Constructor. * @param port output port * @param design the design object */ DataList(final StepOutputPort port, final Design design) { super(port.getFormat()); checkNotNull(design, "design argument cannot be null"); this.port = port; this.design = design; } }