/*
* 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;
}
}