org.sbml.jsbml.ext.layout.SpeciesReferenceRole Maven / Gradle / Ivy
/*
*
* ----------------------------------------------------------------------------
* This file is part of JSBML. Please visit
* for the latest version of JSBML and more information about SBML.
*
* Copyright (C) 2009-2016 jointly by the following organizations:
* 1. The University of Tuebingen, Germany
* 2. EMBL European Bioinformatics Institute (EBML-EBI), Hinxton, UK
* 3. The California Institute of Technology, Pasadena, CA, USA
* 4. The University of California, San Diego, La Jolla, CA, USA
* 5. The Babraham Institute, Cambridge, UK
*
* This library is free software; you can redistribute it and/or modify it
* under the terms of the GNU Lesser General Public License as published by
* the Free Software Foundation. A copy of the license agreement is provided
* in the file named "LICENSE.txt" included with this software distribution
* and also available online as .
* ----------------------------------------------------------------------------
*/
package org.sbml.jsbml.ext.layout;
import org.sbml.jsbml.SBO;
/**
* Enumeration that defines the different SpeciesReferenceRoles that are encoded by
* the {@link Layout} package.
*
* @author Nicolas Rodriguez
* @author Andreas Dräger
* @since 1.0
*/
public enum SpeciesReferenceRole {
/**
*
*/
ACTIVATOR,
/**
*
*/
INHIBITOR,
/**
*
*/
MODIFIER,
/**
*
*/
PRODUCT,
/**
*
*/
SIDEPRODUCT,
/**
*
*/
SIDESUBSTRATE,
/**
*
*/
SUBSTRATE,
/**
*
*/
UNDEFINED;
/**
*
* @return
*/
public int toSBOterm() {
switch (this) {
case ACTIVATOR:
return SBO.getActivator(); // 459 = stimulator
case INHIBITOR:
return SBO.getInhibitor(); // 20 = inhibitor
case MODIFIER:
return SBO.getModifier(); // 19 = modifier
case PRODUCT:
return SBO.getProduct(); // 11 = product
case SIDEPRODUCT:
return SBO.getSideProduct(); // 603 = side product
case SIDESUBSTRATE:
return SBO.getSideSubstrate(); // 604 = side substrate
case SUBSTRATE:
return SBO.getReactant(); // 10 = reactant
case UNDEFINED:
return SBO.getParticipantRole(); // 3 = participant role
default:
return -1; // invalid
}
}
/**
*
* @param sboTerm
* @return the {@link SpeciesReferenceRole} for the given SBO term
* identifier.
*/
public static SpeciesReferenceRole valueOf(int sboTerm) {
if (SBO.isChildOf(sboTerm, ACTIVATOR.toSBOterm())) {
return ACTIVATOR;
} else if (SBO.isChildOf(sboTerm, INHIBITOR.toSBOterm())) {
return INHIBITOR;
} else if (SBO.isChildOf(sboTerm, MODIFIER.toSBOterm())) {
return MODIFIER;
} else if (SBO.isChildOf(sboTerm, SIDEPRODUCT.toSBOterm())) {
return SIDEPRODUCT;
} else if (SBO.isChildOf(sboTerm, PRODUCT.toSBOterm())) {
return PRODUCT;
} else if (SBO.isChildOf(sboTerm, SIDESUBSTRATE.toSBOterm())) {
return SIDESUBSTRATE;
} else if (SBO.isChildOf(sboTerm, SUBSTRATE.toSBOterm())) {
return SUBSTRATE;
}
return UNDEFINED;
}
}