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/**
* @file multi_example2.java
* @brief multi create example
* @author Sarah Keating
* @author Frank Bergmann
*
* <!--------------------------------------------------------------------------
* This file is part of libSBML. Please visit http://sbml.org for more
* information about SBML, and the latest version of libSBML.
*
* Copyright (C) 2009-2013 jointly by the following organizations:
* 1. California Institute of Technology, Pasadena, CA, USA
* 2. EMBL European Bioinformatics Institute (EMBL-EBI), Hinxton, UK
*
* Copyright (C) 2006-2008 by the California Institute of Technology,
* Pasadena, CA, USA
*
* Copyright (C) 2002-2005 jointly by the following organizations:
* 1. California Institute of Technology, Pasadena, CA, USA
* 2. Japan Science and Technology Agency, Japan
*
* 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 http://sbml.org/software/libsbml/license.html
* ------------------------------------------------------------------------ -->
*/
import org.sbml.libsbml.*;
public class multi_example2
{
public static void main(String[] args)
{
System.loadLibrary("sbmlj");
SBMLNamespaces sbmlns = new SBMLNamespaces(3,1,"multi",1);
// create the document
SBMLDocument document = new SBMLDocument(sbmlns);
// set the required attribute to true
SBMLDocumentPlugin docPlug =
(SBMLDocumentPlugin)(document.getPlugin("multi"));
docPlug.setRequired(true);
// create the Model
Model model=document.createModel();
// create a compartment
Compartment c = model.createCompartment();
c.setId("membrane");
c.setConstant(true);
// set the multi attribute isType via the compartmentPlugin
MultiCompartmentPlugin compPlug =
(MultiCompartmentPlugin)(c.getPlugin("multi"));
compPlug.setIsType(true);
// create species
Species s = model.createSpecies();
s.setId("s1");
s.setCompartment("membrane");
s.setBoundaryCondition(false);
s.setHasOnlySubstanceUnits(false);
s.setConstant(false);
// create reaction
Reaction r = model.createReaction();
r.setId("r1");
r.setFast(false);
r.setReversible(false);
// createReactant
SpeciesReference sr = r.createReactant();
sr.setId("sr1");
sr.setSpecies("s1");
sr.setConstant(false);
KineticLaw kl = r.createKineticLaw();
ASTNode ci = new ASTNode(libsbml.AST_NAME);
ci.setName("s1");
MultiASTPlugin astPlugin = (MultiASTPlugin)(ci.getPlugin("multi"));
astPlugin.setSpeciesReference("r1");
ASTNode ci1 = new ASTNode(libsbml.AST_NAME);
MultiASTPlugin astPlugin1 = (MultiASTPlugin)(ci1.getPlugin("multi"));
astPlugin1.setRepresentationType("sum");
ci1.setName("s1");
ASTNode math = new ASTNode(libsbml.AST_TIMES);
math.addChild(ci);
math.addChild(ci1);
kl.setMath(math);
libsbml.writeSBML(document,"multi_example2.xml");
}
}
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