/* * 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.checkArgument; import static com.google.common.base.Preconditions.checkNotNull; import static java.util.Collections.emptySet; import static java.util.Collections.singleton; import java.io.Serializable; import java.util.EnumSet; import java.util.Set; import com.google.common.base.Objects; import fr.ens.biologie.genomique.eoulsan.EoulsanRuntimeException; import fr.ens.biologie.genomique.eoulsan.core.SimpleInputPort; import fr.ens.biologie.genomique.eoulsan.core.Step; import fr.ens.biologie.genomique.eoulsan.core.Step.StepType; import fr.ens.biologie.genomique.eoulsan.data.DataFormat; import fr.ens.biologie.genomique.eoulsan.io.CompressionType; /** * This class define a workflow input port. It is like a standard InputPort but * it contains also the step of the port. * @since 2.0 * @author Laurent Jourdren */ class StepInputPort extends SimpleInputPort implements Serializable { private static final long serialVersionUID = -3858660424325558424L; private final AbstractStep step; private StepOutputPort link; /** * Get the step related to the port. * @return a step object */ public AbstractStep getStep() { return this.step; } /** * Get the output port linked to this input port. * @return the linked output port if exists or null */ public StepOutputPort getLink() { return this.link; } /** * Test if the port is linked. * @return true if the port is linked */ public boolean isLinked() { return this.link != null; } /** * Set the link for the port. * @param outputPort the output of the link */ public void setLink(final StepOutputPort outputPort) { // Check if argument is null checkNotNull(outputPort, "outputPort argument cannot be null"); // Check the ports are not on the same step checkArgument(outputPort.getStep() != this.step, "cannot link a step (" + this.step.getId() + ") to itself (input port: " + getName() + ", output port: " + outputPort.getName()); // Check if a link already exists if (this.link != null) { throw new EoulsanRuntimeException("A link already exists for " + getStep().getId() + "." + getName() + " (" + this.link.getStep().getId() + "." + this.link.getName() + ")"); } // Check if format are compatible if (!getFormat().equals(outputPort.getFormat())) { throw new EoulsanRuntimeException("Incompatible format: " + getStep().getId() + "." + getName() + " -> " + getFormat().getName() + " and " + outputPort.getStep().getId() + "." + outputPort.getName() + " <- " + outputPort.getFormat().getName()); } final AbstractStep step = outputPort.getStep(); // Check if step can be linked if (step.getType() != StepType.DESIGN_STEP && step.getType() != StepType.GENERATOR_STEP && step.getType() != StepType.STANDARD_STEP) { throw new EoulsanRuntimeException("The dependency (" + step.getId() + ") do not provide port (" + outputPort.getName() + ")"); } this.link = outputPort; } @Override public Set<Step> getLinkedSteps() { if (this.link == null) { return emptySet(); } return singleton((Step) this.link.getStep()); } @Override public String toString() { return Objects.toStringHelper(this).add("name", getName()) .add("format", getFormat().getName()) .add("compressionsAccepted", getCompressionsAccepted()) .add("requiredInWorkingDirectory", isRequiredInWorkingDirectory()) .add("step", getStep().getId()).add("link", getLink()).toString(); } // // Constructor // /** * Constructor. * @param step the step related to the port * @param name name of the port * @param format format of the port * @param compressionsAccepted compression accepted * @param requiredInWorkingDirectory if data is required in working directory */ public StepInputPort(final AbstractStep step, final String name, final boolean list, final DataFormat format, final EnumSet<CompressionType> compressionsAccepted, final boolean requiredInWorkingDirectory) { super(name, list, format, compressionsAccepted, requiredInWorkingDirectory); if (step == null) { throw new NullPointerException("Step is null"); } this.step = step; } }